US20230022731A1 - Engineered antibodies and methods of treatment - Google Patents

Engineered antibodies and methods of treatment Download PDF

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US20230022731A1
US20230022731A1 US17/841,326 US202217841326A US2023022731A1 US 20230022731 A1 US20230022731 A1 US 20230022731A1 US 202217841326 A US202217841326 A US 202217841326A US 2023022731 A1 US2023022731 A1 US 2023022731A1
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antibody
mabs
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Jeannette Henrica Wilhelmina LEUSEN
Peter Boross
Johannes Hendrik Marco Jansen
Saskia Meyer
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Tiga TX Inc
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    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K16/00—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies
    • C07K16/18—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans
    • C07K16/28—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants
    • C07K16/2887—Immunoglobulins [IGs], e.g. monoclonal or polyclonal antibodies against material from animals or humans against receptors, cell surface antigens or cell surface determinants against CD20
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00—Antineoplastic agents
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00—Antineoplastic agents
    • A61P35/02—Antineoplastic agents specific for leukemia
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P37/00—Drugs for immunological or allergic disorders
    • A61P37/02—Immunomodulators
    • A61P37/04—Immunostimulants
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P37/00—Drugs for immunological or allergic disorders
    • A61P37/02—Immunomodulators
    • A61P37/06—Immunosuppressants, e.g. drugs for graft rejection
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K39/00—Medicinal preparations containing antigens or antibodies
    • A61K2039/505—Medicinal preparations containing antigens or antibodies comprising antibodies
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
    • C07K2317/21—Immunoglobulins specific features characterized by taxonomic origin from primates, e.g. man
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/20—Immunoglobulins specific features characterized by taxonomic origin
    • C07K2317/24—Immunoglobulins specific features characterized by taxonomic origin containing regions, domains or residues from different species, e.g. chimeric, humanized or veneered
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/30—Immunoglobulins specific features characterized by aspects of specificity or valency
    • C07K2317/34—Identification of a linear epitope shorter than 20 amino acid residues or of a conformational epitope defined by amino acid residues
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/50—Immunoglobulins specific features characterized by immunoglobulin fragments
    • C07K2317/52—Constant or Fc region; Isotype
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/50—Immunoglobulins specific features characterized by immunoglobulin fragments
    • C07K2317/56—Immunoglobulins specific features characterized by immunoglobulin fragments variable (Fv) region, i.e. VH and/or VL
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
    • C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
    • C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation
    • C07K2317/732—Antibody-dependent cellular cytotoxicity [ADCC]
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/70—Immunoglobulins specific features characterized by effect upon binding to a cell or to an antigen
    • C07K2317/73—Inducing cell death, e.g. apoptosis, necrosis or inhibition of cell proliferation
    • C07K2317/734—Complement-dependent cytotoxicity [CDC]
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/90—Immunoglobulins specific features characterized by (pharmaco)kinetic aspects or by stability of the immunoglobulin
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K2317/00—Immunoglobulins specific features
    • C07K2317/90—Immunoglobulins specific features characterized by (pharmaco)kinetic aspects or by stability of the immunoglobulin
    • C07K2317/92—Affinity (KD), association rate (Ka), dissociation rate (Kd) or EC50 value

Definitions

  • the disclosure relates to the field of antibodies.
  • it relates to antibodies that bind CD20.
  • It further relates to the use of CD20 antibodies in medical and detection methods.
  • the disclosure further relates to cells, nucleic acid molecules and methods for the production of the antibodies.
  • RTX Non-Hodgkin's lymphomas and leukemias
  • CD20 mAbs can induce antibody-dependent cell-mediated cytotoxicity/phagocytosis (ADCC/ADCP), CDC or PCD.
  • ADCC/ADCP antibody-dependent cell-mediated cytotoxicity/phagocytosis
  • CDC cytotoxicity/phagocytosis
  • MoA mechanism-of-actions
  • CD20 mAbs are grouped into Type I and Type II. Both Type I and II mAbs elicit ADCC Type I mAbs, including RTX and OFA, relocate CD20 into lipid rafts and efficiently activate the complement system.
  • Type II mAbs induce PCD via a caspase-independent pathway.
  • the only described Type II mAbs are OBZ, (12) B1, (13) and 11B8.
  • Type I/H classification (a) the epitope, (b) binding kinetics and (c) residues within the elbow-hinge angle determining region of the VH chain framework.
  • Human CD20 comprises a small (residue 72-80) and larger (residue 140-186) extracellular loop.
  • the epitope of RTX is located on the larger loop with 170 ANPS 173 representing the core binding region.
  • Mutagenesis experiments confirmed N171 to be an important residue for RTX.
  • For RTX and another panel of Type I mouse CD20 mAbs A170 and P172 were determined to be important.
  • Type II mAbs OBZ and B1 have an overlapping epitope (170 ANPSEKNSP 178 (SEQ ID NO: 15)) with RTX, residues 176-178 contribute most to the binding.
  • the epitope of the Type I mAb OFA and Type II mAb 11B8 is comprised by residues on the small and larger loop.
  • OFA recognizes this unique epitope and efficiently activates complement, it was suggested that the membrane-proximal binding results in a beneficial orientation of the available Fc-fragments allowing better complement deposition.
  • Ab kinetics were proposed to correlate with the CDC activity of CD20 mAbs, as the strong complement inducer OFA dissociates significantly more slowly from CD20 than RTX with an intermediate CDC capacity.
  • Further evidence supporting the contribution of a slower off-rate to better CDC induction comes from studies with the CD20 mAb veltuzumab.
  • CD20 antibodies are known there is still little known about the properties that determine the mechanism-of-action of CD20 mAbs.
  • the disclosure shows novel CD20 antibodies. All antibodies display Type I characteristics whereas some of these also display Type II characteristics. It was found that neither the epitope, nor the off-rate are by themselves is enough to predict whether a CD20 antibody exhibits a Type I, a Type II or Type I/II activity.
  • This disclosure further provides CD20 antibodies with a human IgA constant region.
  • IgA is the second most prominent antibody in blood, after IgG, and the predominant Ab at the mucosa
  • the monomeric version of IgA is mostly found in serum, whereas polymeric IgA is produced at mucosal sites.
  • the 2 Ab subclasses, IgA1 and IgA2 differ structurally in their hinge regions, which is 13 amino acids longer for IgA1 compared to IgA2. This might enable an improved reach for antigens that are distant, but at the same time makes it more prone to degradation by proteases. (36)
  • the hinge region of IgA1 Abs carries several O-linked glycosylation sites, which are absent in IgA2 Abs.
  • IgA2 exists as 3 allotypes; IgA2(m1) which has 2 additional N-linked glycosylation sites compared with IgA1, and IgA2(m2) and IgA2(n), which have 3 additional N-linked glycosylation sites. Contrary to IgG, IgA is a weak activator of the classical complement pathway as it cannot bind C1q. (37) However, IgA mAbs have been shown to activate the complement system through the lectin pathway, as the carbohydrate recognition domain (CRD) of mannan-binding lectin (MBL) can bind to IgA. (38)
  • IgA engages immune effector cells by binding to the Fc ⁇ RI (CD89), which is expressed on cells of the myeloid lineage: neutrophils, monocytes, different macrophage populations and eosinophils. (39) Expression on in vitro generated dendritic cells was shown, (40,41) but remains controversial. Neutrophils express high levels of Fc ⁇ RI, while macrophages have lower expression. (42) In ADCC assays with IgA mAbs targeting solid tumor targets, neutrophils have been shown to efficiently eradicate tumor cells. (43-46) In contrast, IgG1 mAbs were less able to engage this effector cell population.
  • Fc ⁇ RI CD89
  • mice lack a receptor for IgA, therefore the generation of human Fc ⁇ RI transgenic now allows in vivo testing.
  • Boross and colleagues eventually showed in an immunocompetent tumor model the great potential of IgA mAbs in a therapeutic setting.
  • the majority of IgA mAbs studied so far are targeting HER2 or EGFR, antigens expressed on solid tumors. Only one study has looked at the potential of monomeric IgA-CD20 mAbs.
  • Complement-mediated tumor cell killing was demonstrated to rely on weak indirect activation of the classical pathway and more pronounced direct activation of the alternative pathway.
  • the disclosure provides an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (one letter code for Glu Pro Ala Asn Pro Ser Glu Lys (SEQ ID NO:31)) on human CD20 expressed on Ramos cells and which antibody has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype.
  • EPNpSEK one letter code for Glu Pro Ala Asn Pro Ser Glu Lys
  • the disclosure also provides an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SNSYGSTYWYFDV (SEQ ID NO:21).
  • the disclosure further provides an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANPsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • an antibody that can bind to an extracellular part of human CD2 expressed on Ramos cells, the antibody comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence YYYGSSYGAMDY (SEQ ID NO:22).
  • an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC functionality when compared to Rituximab with a constant region of the same isotype.
  • an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence TYYYGSSPYWSFDV (SEQ ID NO:23).
  • an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SAYYGSNVWFFDV (SEQ ID NO:25).
  • antibodies as described herein for use in the treatment of a disease in an individual.
  • antibodies as described herein for use in the treatment of a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells.
  • antibodies as described herein for use in the treatment of a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma.
  • Also provided are methods for the treatment of an individual that has a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells comprising administering to the individual in need thereof an antibody as described herein.
  • CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma comprising administering to the individual in need thereof an antibody as described herein.
  • long-term adverse effects of rituximab are noted: permanent depletion of B cells and inability of na ⁇ ve B cells to switch to memory B cells, resulting in life-long immunoglobulin depletion.
  • the long persistence of IgG in the body is probably accountable.
  • An IgA antibody described herein has a stronger ADCC function when compared to an IgG antibody comprising the same variable domain. This is apparent when a B-cell-specific marker is analyzed that is not subject to trogocytosis upon incubation of the cell with a CD20 antibody.
  • An IgA antibody described herein has a short half-life when compared to an IgG antibody comprising the same variable domain.
  • the IgA antibodies as described herein cause fewer side effects when compared to an IgG antibody with the same variable domain.
  • the IgA antibodies of the disclosure facilitate an effective hit but are also cleared fast enough to allow a good recovery of the B-cell repertoire. This is particularly helpful in preserving the B-cell repertoire following recovery from the treatment, particularly in the mentioned leukemia patients that have a B-cell disease after stem cell transplantation treated with an antibody of the disclosure and pediatric patients after B-cell depletion with an antibody of the disclosure.
  • variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:1 and 2, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions
  • the disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:7 and 8 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS: 9 and 10 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:11 and 12 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:13 and 14 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions. Further provided is an antibody comprising a variable domain as specified herein.
  • nucleic acid that codes for an antibody as described herein
  • FIGS. 1 . 1 and 1 . 2 Most new CD20 mAbs have unique heavy and light chain sequences. Sequences coding for the variable region of the (A) heavy chain and (B) light chain were aligned and compared with commercially available CD20 mAbs by calculating the average distance using % identity (PID). The right panel is a snapshot of the tree on the left.
  • FIGS. 2 A- 2 C As mouse antibodies, all new CD20 mouse IgG mAbs exhibit Type I characteristics.
  • FIG. 2 A PCD: EL4-CD20 cells incubated for 24 hours with 1 ⁇ g/mL CD20 mAbs in the absence or presence of cross-linking Ab. PCD determined by 7-AAD + /AnnexinV-PE + staining (mean+SEM).
  • FIGS. 3 A, 3 B New mIgG2c-CD20 mAbs display varying CDC properties. Induction of complement-dependent cytotoxicity by ( FIG. 3 A ) all new mIgG2c-CD20 mAbs on Daudi cells and ( FIG. 3 B ) m1, m2 and m7D8 on Ramos and Raji cells. mIgG2a-CD20 mAbs B1 and m7D8 were taken along as controls. Cells were incubated with indicated mAb concentrations and 15.5% human serum. Cytotoxicity was determined by 7-AAD staining ((value sample ⁇ mean medium )+SEM).
  • FIGS. 4 A- 4 C Binding site on CD20 is different among new CD20 mAbs.
  • FIG. 4 A Epitope mapping using the circular peptide YNCEPANPSEKNSPSTQYCYS (SEQ ID NO:16) resulted in identification of the epitope of m1 (left) but only marginally of m2 (right). Binding of 1 ⁇ g/mL mAb to the peptide and mutants with each amino acid replaced with all other available (positional scan; excluding cysteine) was determined by ELISA. Grey line and shaded area represents WT binding A SEM. Results are displayed with Tukey-whiskers. ( FIG.
  • HEK293F cells were transfected with plasmids and binding of mAbs (5 ⁇ g/mL) to CD20 was measured by FACS. Binding was compared to Type I CD20 mAbs (m7D8 and mRTX) and Type II mAbs (B1 and m11BS).
  • FIGS. 5 A- 5 C New CD20 mAbs with distinct kinetics. Real-time binding and dissociation curve to SKBR3-CD20 cells using Ligand Tracer Green. Association of 10 nM FITC-labeled CD20 mAbs was monitored for 1 hour before following the dissociation for 3 hours in the presence of ( FIG. 5 A ) RPMI culture medium (non-competitive) or ( FIG. 5 B ) 100 nM unlabeled CD20 mAbs (competitive). ( FIG. 5 C ) Comparison of dissociation rate constants under non-competitive and competitive conditions determined by 1:1 Fitting model.
  • FIG. 6 Chimerization can alter PCD activity.
  • IgG1-CD20-1 and IgG1-CD20-2 mAbs (1 ⁇ g/mL) with or without theL11V mutation in the absence (light grey bar) or presence (dark grey bar) of cross-linking Ab (for IgG1, a-human IgG: 20 ⁇ g/mL; for B1, a-mouse IgG: 50 ⁇ g/mL).
  • B1 and OFA as positive and negative control, respectively.
  • Induction of cell death was determined by 7-AAD and AnnexinV-PE staining (mean+SEM).
  • FIGS. 7 A, 7 B Differences in in vivo efficacy of m1gG2c-CD20 mAbs.
  • C57BL/6 mice (4-6 mice/group) were injected intraperitoneally with 5 ⁇ 105 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb or PBS treatment.
  • the anti-tumor response was evaluated 24 hours later by determining the amount of remaining tumor cells in the peritoneal lavage with TruCount tubes.
  • FIG. 7 A mAb titration of m1, m2 and m7DS (median+interquartile range).
  • FIG. 7 A mAb titration of m1, m2 and m7DS (median+interquartile range).
  • FIG. 8 New chimeric IgG1-CD20 mAbs bind to CD20-expressing Daudi cells. Binding was determined by FACS after incubation of Daudi cells with a dilution series of mAb. RTX and OFA were included as positive controls, and Trastuzumab as isotype control.
  • FIGS. 9 A- 9 G Analysis of in vitro efficacy of new chimeric IgG1-CD20 mAbs.
  • FIG. 9 B CDC of new CD20 mAbs determined in 15.5% human serum and detected by 7-AAD staining ((value sample ⁇ mean medium ) ⁇ SEM).
  • FIG. 9 B CDC of new CD20 mAbs determined in 15.5% human serum and detected by 7-AAD staining ((value sample ⁇ mean medium ) ⁇ SEM).
  • PCD EL4-CD20 cells incubated for 24 hours with 1 ⁇ g/mL CD20 mAbs in the absence or presence of 20 ⁇ g/mL cross-linking Ab. PCD was determined by 7-AAD/AnnexinV-PE staining (mean+SEM). B1 (mIgG2a-CD20 mAb) is a positive control for PCD ((value sample ⁇ mean medium ) ⁇ SEM). In all assays RTX and OFA were included as positive controls, and TRA as isotype control. PCD induction on ( FIGS. 9 D, 9 E ) Ramos cells and ( FIGS.
  • 9 F, 9 G Daudi cells by IgG1-CD20-1 without or with the L11V mutation (10 ⁇ g/ml). Induction of cell death was determined by ( FIGS. 9 D, 9 F ) 7-AAD/AnnexinVPE staining and ( FIGS. 9 E, 9 G ) DiOC6/TO-PRO-3 staining (mean+SEM). 11B8 and OFA were taken along as positive and negative control, respectively. Results are representative of 3 separate assays. *p ⁇ 0.05; **p ⁇ 0.01; ***p ⁇ 0.001, by one way ANOVA followed by Bonferroni posthoc analysis.
  • FIGS. 10 A, 10 B Disappearance of CD19+ viable B cells in autologous setting. B-cell depletion by CD20 mAbs was determined by incubating mAbs for 1 hour at 37° C. with unprocessed blood from healthy donors.
  • FIG. 10 A FACS plots showing disappearance of viable B cells upon incubation with mAb (here IgG1-CD20-1) compared to PBS control.
  • FIG. 10 B B-cell depletion mediated by CD20 mAbs determined over a broader concentration range (mean+SEM). RTX and OFA were included as positive controls, and TRA as isotype control.
  • FIG. 11 In vivo efficacy of IgG1-CD20 mAbs.
  • C57BL/6 mice (6 mice/group) were injected intraperitoneally with 5 ⁇ 10 5 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb (10 ⁇ g) or PBS treatment.
  • the anti-tumor response was evaluated 24 hours later by determining the amount of remaining tumor cells in the peritoneal lavage with TruCount tubes (median interquartile range).
  • FIGS. 12 A- 12 C Production of IgA-CD20 mAbs.
  • FIG. 12 A Test transfection of HEK293F cells to determine optimal ratio between HC, LC and pAdvantage coding plasmids. Concentrations of produced IgA-CD20 mAbs were measured by an IgA-specific ELISA. Large scale produced IgA-CD20 mAbs were purified by ( FIG. 12 B ) anti-human kappa affinity chromatography, followed by ( FIG. 12 C ) size-exclusion chromatography to separate the full size antibody from loose light chains and aggregates. Representative graphs are displayed.
  • FIG. 13 Binding of IgA-CD20 mAbs to CD20-expressing Ramos cells. Binding was determined by FACS after incubation of Ramos cells with a dilution series of mAb.
  • FIG. 14 Variable extent of programmed cell death induction by IgA-CD20 mAbs.
  • EL4-CD20 cells were incubated for 24 hours with 1 ⁇ g/mL mAb in the absence and presence of cross-linking Ab (B1: 50 ⁇ g/mL; IgG1 and IgA mAbs: 20 ⁇ g/mL).
  • the degree of cell death was determined as the sum of AnnexinV + and AnnexinV + /7AAD + cells (value sample ⁇ mean medium +SEM).
  • B1 (mIgG2a-CD20 mAb) and RTX were taken along as positive controls and OFA as a negative control.
  • FIGS. 15 A- 15 C Complement-dependent cytotoxicity induced by IgA-CD20 mAbs. Target cells were incubated for indicated time with 15.5% pooled human serum and degree of CDC was determined as % 7AAD + cells.
  • FIGS. 15 A, 15 B Time dependency of complement induction by IgA-CD20 mAbs. Complement-mediated lysis of ( FIG. 15 A ) Daudi and ( FIG. 15 B ) Ramos cells incubated for 15, 60, 240, and 360 minutes in the presence of 10 ⁇ g/mL mAb.
  • FIGS. 16 A- 16 C B-cell depletion assay in autologous setting. Whole blood leukocytes were incubated with CD20 mAbs for 3 hours at 37° C. Analysis was performed on FSC/SSC lymphocyte gate from which CD3, CD14, CD56 and CD11b positive cells were excluded. CD19 was used as B-cell marker.
  • FIG. 16 A Analysis of CD19 expression on CD19-cells (B cells).
  • FIG. 16 B Number of CD19 + events found in lymphocyte gate.
  • FIG. 16 C Number of CD19 + cells found in lymphocyte gate after background (no antibody) subtraction.
  • FIG. 18 Amino acid sequence of various I and VL chains. CDR sequences are underlined from left to right in the sequence CDR1, CDR2 and CDR3.
  • the positions of the CDRs in the VH were determined using the following criteria:
  • the positions of the CDRs in the VL were determined using the following criteria:
  • FIG. 19 Binding of mIgG-CD20 mAbs to Daudi cells.
  • FIG. 20 No induction of HA of EL4-CD20 cells by new CD20 mAbs (1 ⁇ g/mL) (20 ⁇ magnification). Cross-linking Ab (50 ⁇ g/mL) was added as positive control conditions B1 as positive control (Type II).
  • FIGS. 22 A- 22 D FACS based dissociation analysis. Daudi cells were stained with 10 ⁇ g/mL Alexa647-labeled CD20 mAb. Cells were left in ( FIG. 22 A ) RPMI culture medium (non-competitive) or ( FIG. 22 B ) the presence of a 10-fold excess of unlabeled mAb (100 ⁇ g/mL; competitive). At indicated time points the level of cell-bound mAb was determined.
  • FIG. 22 C , FIG. 22 D Real-time binding and dissociation curve to SKBR3-CD20 cells using the Ligand Tracer technology.
  • FIG. 23 Summarizing overview of molecular determinants of existing and novel CD20 mAbs. Three distinct molecular determinants were described to determine the MoA of CD20 mAbs: 1) epitope (positions of several CD20 antibodies are indicated); 2) kinetics (k off of the CD20 antibodies were ranked from high (10 ⁇ 5 ) to low (10 ⁇ 6 ), and 3) elbow angle (commercially available CD20 mAbs (OFA, RTX and OBZ) were grouped in wide and narrow angle according to literature. The amino acid at Kabat position 11 was described to influence the angle, and based on this, the new chimeric mAbs were ordered according to the residue).
  • FIG. 24 Amino acid sequence of suitable IgG1, IgA1 and IgA2 heavy and light chain constant regions.
  • FIG. 25 Internalization of CD20 from B cells at 1 ug of antibody.
  • the number in the UMAB . . . reference in the figures refer to the variable domains of antibody m . . . with the respective numbers and the constant region as indicated.
  • FIGS. 26 . 1 , 26 . 2 , and 26 . 3 Titration range of antibodies in CD20 internalization of B cells.
  • FIGS. 27 A, 27 B Analysis of in vitro efficacy of new chimeric IgA-CD20 mAbs.
  • FIGS. 28 A- 28 C In vivo efficacy of IgA-CD20 mAbs. C57BL/6 mice (6 mice/group) were injected intraperitoneally with 5 ⁇ 10e5 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb (10 ⁇ g) or PBS treatment. The anti-tumor response was evaluated 24 hours later by determining the amount of remaining tumor cells in the peritoneal lavage with TruCount tubes (median ⁇ interquartile range)
  • FIG. 29 Loss of CD20 expression occurs after IgG treatment, but not after IgA treatment in vivo.
  • C57BL/6 mice (6 mice/group) were injected intraperitoneally with 5 ⁇ 10e5 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb (10 ⁇ g) or PBS treatment. Subsequently, CD20 expression was determined on these cells by flow cytometric analysis
  • FIG. 30 CD19/CD24+ events with antibodies having a variable domain of the indicated antibody and the indicated constant regions, IgG1, IgA1 or IgA2.
  • the disclosure is concerned with antibodies that bind CD20.
  • the CD20 protein is also known under various other names such as Membrane Spanning 4-Domains A1; MS4A1; Membrane-Spanning 4-Domains Subfamily A Member 1; Leukocyte Surface Antigen Leu-16; CD20 Antigen; Bp35; B-Lymphocyte Cell-Surface Antigen B1; B-Lymphocyte Surface Antigen B1; CD20 Receptor, LEU-16; CVID5; MS4A2; B1; and S7.
  • External Ids for MS4A1 are HGNC: 7315; Entrez Gene: 931; Ensembl: ENSG00000156738; OMIM: 112210 and UniProtKB: P11836.
  • Some of the names may or may not have also been used to refer to other proteins than CD20.
  • the names and sequence identifiers are given for reference purposes only.
  • An antibody of the disclosure hinds to CD20 as expressed on Ramos cells but also to other CD20 molecules as long as the epitope to which the antibody binds is available.
  • splicing variants or mutant CD20 molecules will also be bound by an antibody of the disclosure as long as the epitope is available.
  • the fact that the antibody binds to CD20 means that the antibody can bind to CD20 and does not imply that the antibody is actually bound to C D20. It also does not mean that the antibody does not bind to other proteins.
  • Such cross-reactivity is at present not known for an antibody of this disclosure, however, it is not expressly excluded that such cross-reactivity may exist.
  • An antibody also known as an immunoglobulin (Ig) is a large, typically Y-shaped protein.
  • An antibody interacts with various components of the immune system. Some of the interactions are mediated by its Fc region (located at the base of the “Y”), which contains site(s) involved in these interactions.
  • Antibodies are proteins belonging to the immunoglobulin superfamily. They typically have two heavy chains and two light chains. There are several different types of antibody heavy chains that define the five different types of crystallisable fragments (Fc) that may be attached to the antigen-binding fragments. The five different types of Fc regions allow antibodies to be grouped into five isotypes. An Fc region of a particular antibody isotype is able to bind to its specific Fc receptor (FcR) thus allowing the antigen-antibody complex to mediate different roles depending on which FcR it binds.
  • FcR Fc receptor
  • an IgG antibody to bind to its corresponding FcR is modulated by the presence/absence of interaction sites and the structure of the glycan(s) (if any) present at sites within its Fc region.
  • the ability of antibodies to bind to FcRs helps to direct the appropriate immune response for each different type of foreign object they encounter.
  • hypervariable region a region at the tip of the protein is extremely variable, allowing millions of antibodies with slightly different tip structures, or antigen-binding sites, to exist. This region is known as the hypervariable region.
  • the enormous diversity of antigen binding by antibodies is largely defined by the hypervariable region and the variable domain containing the hypervariable region.
  • An antibody of the disclosure is typically a full-length antibody.
  • the term “full length antibody” is defined as comprising an essentially complete immunoglobulin molecule, which however does not necessarily have all functions of an intact immunoglobulin. For the avoidance of doubt, a full length antibody has two heavy and two light chains. Each chain contains constant (C) and variable (V) regions.
  • a heavy chain of a full length antibody typically comprises a CH1, a CH2, a CH3, a VH region and a hinge region.
  • a light chain of a full length antibody typically comprises a CL region and a VL region.
  • An antibody binds to antigen via the variable region domains contained in the Fab portion.
  • An antibody variable domain comprises a heavy chain variable region and a light chain variable region.
  • Full length antibodies according to the disclosure encompass heavy and light chains wherein mutations may be present that provide desired characteristics. Full length antibodies should not have deletions of substantial portions of any of the regions. However, IgG molecules wherein one or several amino acid residues are substituted, inserted, deleted or a combination thereof, without essentially altering the antigen binding characteristics of the resulting antibody, are embraced within the term “full length” antibody.
  • a “full length” antibody can have a substitution, insertion, deletion or a combination thereof, of between 1 and 10 (inclusive) amino acid residues, preferably in non-CDR regions, wherein the deleted amino acids are not essential for the binding specificity of the antibody.
  • the epitope that is recognized by an antibody of the disclosure, and/or minor contributing amino acids therein were determined by, among others, positional amino acid scan wherein the amino acid was replaced by every other natural amino acid in a peptide containing the epitope and by a mutant screen of the CD20 protein expressed on cells.
  • the contribution of an amino acid to the binding of an antibody to an epitope is preferably determined by comparing the binding to a peptide comprising the epitope as such and the same peptide but with an alanine at the position of the analyzed amino acid.
  • An amino acid is relevant to the binding of the antibody to the protein when a replacement with an alanine in the protein results in a decrease of binding of the antibody to 0-70% relative to the unmodified protein. This is also referred to a reduction of binding.
  • a decrease to 0-20% if the binding relative to the unmodified protein is regarded as loss of binding and a decrease to 21-70% relative to the unmodified protein is regarded as intermediate binding.
  • the thus identified amino acids are considered to be a major contributor or an intermediate contributor to the binding of the antibody to the protein.
  • a binding of 71-100% was regarded as full binding.
  • the amino acid concerned is not regarded to contribute significantly to the binding of the antibody to the protein.
  • One of the antibodies provided by the disclosure is an antibody (A) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype.
  • the antibody preferably further comprises a comparable or an increased CDC functionality when compared to Rituximab with a constant region of the same isotype.
  • the ADCC functionality of the antibody is comparable or reduced when compared to Rituximab with a constant region of the same isotype.
  • the epitope on CD20 that is bound by the antibody is “EPANpSEK” (SEQ ID NO:31).
  • a capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide.
  • a bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide.
  • the antibody binds 20% or less to a CD20 protein wherein one or more of the amino acids N or S in “EPANpSEK” (SEQ ID NO:31) have been replaced by an alanine, where the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • an antibody (A1) that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SNSYGSTYWYFDV (SEQ ID NO:21).
  • the antibody (A1) has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype.
  • the antibody preferably further comprises a comparable or an increased CDC functionality when compared to Rituximab with a constant region of the same isotype.
  • the ADCC functionality of the antibody is comparable or reduced when compared to Rituximab with a constant region of the same isotype.
  • the heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNLH (SEQ ID NO:26), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SNSYGSTYWYFDV (SEQ ID NO:21), respectively.
  • the heavy chain variable region comprises the sequence of SEQ ID NO:1, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:1 has the sequence
  • the light chain variable region of the antibody (A1) preferably comprises the sequence of SEQ ID NO:2, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:2 has the sequence
  • the antibody A1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof.
  • it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof.
  • it comprises a human IgG1 constant region.
  • the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2 m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region.
  • the antibody comprises a murine IgG2 region, preferably a IgG2c constant region.
  • the antibody A is an A1 antibody.
  • the antibody A or A1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:1 and the sequence of SEQ ID NO:3, 4 or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the antibody A or A1 preferably comprises alight chain comprising the sequence of SEQ ID N0:2 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the disclosure also provides an antibody (D) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANPsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased ADCC functionality when compared to Rituximab a constant region of the same isotype.
  • the epitope in CD20 that is bound by the antibody is “EPANPsEK” (SEQ ID NO:31).
  • a capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide.
  • a bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide.
  • the antibody binds 20% or less to a CD20 protein wherein the amino acid N in “EPANpSEK” (SEQ ID NO:31) has been replaced by an alanine, whereby the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • an antibody (B1) that can bind to an extracellular part of human CD20 expressed on Ramos cells, the antibody comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence YYYGSSYGAMDY (SEQ ID NO:22).
  • the antibody B1 has an increased ADCC functionality when compared to Rituximab with the same isotype constant region.
  • the heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), GIYPGNGDTSYNQKFKG (SEQ ID NO:29) and YYYGSSYGAMDY (SEQ ID NO:22), respectively.
  • the heavy chain variable region comprises the sequence of SEQ ID NO:7, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:7 has the sequence
  • the light chain variable region of the antibody B1 preferably comprises the sequence of SEQ ID NO:8, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:8 has the sequence
  • the antibody B1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgF, IgA heavy chain constant region or a combination thereof.
  • it comprises a mouse IgG2; a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof.
  • it comprises a human IgG1 constant region.
  • the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region.
  • the antibody comprises a murine IgG2 region, preferably a IgG2c constant region.
  • the antibody B is a B1 antibody.
  • the antibody B or B1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:7 and the sequence of SEQ ID NO:3, 4 or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the antibody B or B1 preferably comprises a light chain comprising the sequence of SEQ ID NO:8 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the disclosure also provides an antibody (C) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC functionality when compared to Rituximab with a constant region of the same isotype.
  • it comprises similar ADCC functionality as Rituximab with a constant region of the same isotype.
  • the epitope in CD20 that is bound by the antibody is “EPANpsEK” (SEQ ID NO:31).
  • a capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide.
  • a bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide.
  • the antibody binds 20/or less to a CD20 protein wherein the amino acid N in “EPANpSEK” (SEQ ID NO:31) has been replaced by an alanine, whereby the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • an antibody (C1) that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence TYYYGSSPYWSFDV (SEQ ID NO:23).
  • the antibody has an increased CDC functionality when compared to Rituximab with a constant region of the same isotype.
  • it comprises a similar ADCC functionality as Rituximab with a constant region of the same isotype.
  • the heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and TYYYGSSPYWSFDV (SEQ ID NO:23), respectively.
  • the heavy chain variable region comprises the sequence of SEQ ID NO:9, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:9 has the sequence
  • the light chain variable region of the antibody C1 preferably comprises the sequence of SEQ ID NO:10, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:10 has the sequence
  • the antibody C1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof.
  • it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof.
  • it comprises a human IgG1 constant region.
  • the heavy chain constant region is a human IgA 1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region.
  • the antibody comprises a murine IgG2 region, preferably a IgG2b constant region.
  • the antibody C is a C1 antibody.
  • the antibody C or C1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:9 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the antibody C or C1 preferably comprises alight chain comprising the sequence of SEQ ID NO:10 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • an antibody D1 that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SRLFDSSYGWYFDV (SEQ ID NO:24).
  • the antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • it comprises an improved ADCC functionality as Rituximab with a constant region of the same isotype.
  • the heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SRLFDSSYGWYFDV (SEQ ID NO:24), respectively.
  • the heavy chain variable region comprises the sequence of SEQ ID NO:11, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:11 has the sequence
  • the light chain variable region of the antibody D1 preferably comprises the sequence of SEQ ID NO:12, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR 1, CDR2 and CDR3 regions, wherein SEQ ID NO:12 has the sequence
  • the antibody D1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof.
  • it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof.
  • it comprises a human IgG1 constant region.
  • the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2 m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region.
  • the antibody comprises a murine IgG2 region, preferably a IgG2c constant region.
  • the antibody D is a D1 antibody.
  • the antibody D or D1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:11 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the antibody D or D1 preferably comprises a light chain with the sequence of SEQ ID NO:12 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the disclosure also provides an antibody (E) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • the epitope in CD20 that is bound by the antibody is “EPANpSEK” (SEQ ID NO:31).
  • a capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide.
  • a bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide.
  • the antibody binds 20% or less to a CD20 protein wherein one or more of the amino acids N or S in “EPANpSEK” (SEQ ID NO:31) have been replaced by an alanine, where the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • an antibody (E1) that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SAYYGSNVWFFDV (SEQ ID NO:25).
  • the antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • the heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNLH (SEQ ID NO:26), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SAYYGSNVWFFDV (SEQ ID NO:25), respectively.
  • the heavy chain variable region comprises the sequence of SEQ ID NO:13, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:13 has the sequence
  • the light chain variable region of antibody E1 preferably comprises the sequence of SEQ ID NO:14, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:14 has the sequence
  • the antibody E1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof.
  • it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof.
  • it comprises a human IgG1 constant region.
  • the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2 m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region.
  • the antibody comprises a murine IgG2 region, preferably an IgG2c constant region.
  • the antibody E is an E1 antibody.
  • the antibody E or E1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:13 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the antibody E or E1 preferably comprises a light chain with the sequence of SEQ ID NO:14 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the functionality of an antibody can be compared to Rituximab with a constant region of the same isotype. This is preferably the same constant region. Some amino acid differences may be present in the constant regions, such amino acid differences can, for instance, be introduced by somatic cell hypermutation. Between 0-5 amino acid differences are typically allowed, although more is also possible. For a comparison of functionality it is preferred that the constant regions of antibody and rituximab are the same.
  • An antibody of the disclosure can have a heavy chain variable region with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the sequence of the CDRs is thus as indicated in the respective SEQ ID NO.
  • the heavy chain variable region has 0-4 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the heavy chain variable region has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • a heavy chain variable region in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID NO indicated.
  • An antibody of the disclosure can have a light chain variable region with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the sequence of the CDRs is thus as indicated in the respective SEQ ID NO.
  • the light chain variable region has 0-4 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the light chain variable region has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • a light chain variable region in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID NO indicated.
  • a heavy chain of an antibody of the disclosure can have 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the sequence of the CDRs is thus as indicated in the respective SEQ ID NO.
  • the heavy chain has 0-10, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the heavy chain can have 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 and 15, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. It is preferred that the heavy chain has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. In a preferred embodiment, the heavy chain in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID numbers indicated.
  • Alight chain of an antibody of the disclosure can have 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the sequence of the CDRs is thus as indicated in the respective SEQ ID NO. It is preferred that the light chain has 0-10, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions.
  • the light chain can have 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 and 15, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. It is preferred that the light chain has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. In a preferred embodiment, the light chain in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID numbers indicated.
  • An antibody A, B, C, D, E, A1, B1, C1, D1, or E1 as described herein can be a bispecific antibody comprising one variable domain that binds an antigen other than the indicated epitope on an extracellular part of CD20 as expressed on Ramos cells.
  • the other antigen is preferably CD19, CD64, CD32, CD16, CD3 and CD47.
  • an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 comprises two variable domains that each bind the same epitope on an extracellular part of CD20 as expressed on Ramos cells, wherein the epitope is as indicated for the variable domain of antibody A, B, C, D, E, A1, B1, C1, D1, or E1.
  • the antibody A, B, C, D, E, A1, B1, C1, D1, or E1 preferably comprises two identical variable domains.
  • the antibody A, B, C, D, E, A1, B1, C1, D1, or E1 preferably comprises two variable domains that each bind the same epitope and comprise the same VH and the same VL sequence.
  • the disclosure further provides a CAR-T receptor comprising a variable domain of an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 as described herein.
  • the variable domain comprises a heavy chain variable region and a variable light chain region of the respective antibodies, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • the sequence of the respective heavy and light chain variable regions is indicated in FIG. 18 .
  • a CAR-T receptor preferably comprises a variable domain of antibody A1.
  • the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:1 and 2, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • a CAR-T receptor preferably comprises a variable domain of antibody B1.
  • the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:7 and 8, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • a CAR-T receptor preferably comprises a variable domain of antibody C1.
  • the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:9 and 10, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • a CAR-T receptor preferably comprises a variable domain of antibody D1.
  • the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:11 and 12, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • a CAR-T receptor preferably comprises a variable domain of antibody E1.
  • the variable domain comprise the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:13 and 14, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • a T-cell comprising a CAR-T cell receptor of the disclosure for use in adoptive cell transfer.
  • the use is preferably for the treatment of an individual that has a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma comprising administering to the individual in need thereof an antibody as described herein. It is also useful in the treatment of children with B-cell malignancies and pediatric leukemia patients that have a B-cell disease after stem cell transplantation.
  • a reason for changing an amino acid at a certain position can be immunogenicity.
  • Antibodies of the present disclosure have variable heavy and variable light chain regions derived from a murine background. Antibodies with such variable domains can be used in humans. Presently it is preferred to de-immunize such variable domains. De-immunization typically involves the modification of the murine sequence into a more human sequence whenever possible. Typically such modifications are directed toward removing one or more T-cell epitopes or one more B-cell epitopes from the variable domain.
  • the disclosure provides an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 wherein one or more (human) T-cell epitopes have been removed by replacement of at least one amino acid of the epitope with a different amino acid. Often it is sufficient to substitute the so-called “anchor” amino acid. Suitable replacement amino acids can be obtained from somatic cell hypermutants of the particular VH or VL. Replacement with an amino acid that is naturally present at that position in a human antibody is preferred.
  • the disclosure provides an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 wherein one or more (human) B-cell epitopes have been removed by replacement of at least one amino acid of the epitope with a different amino acid. Often it is sufficient to substitute only one amino acid of the epitope. Suitable replacement amino acids can be obtained from somatic cell hypermutants of the particular VH or VL. Replacement with an amino acid that is naturally present at that position in a human antibody is preferred. Preferably a variable domain of the disclosure is modified with respect to one or more exterior residues.
  • Such residues are readily encountered by the immune system and are preferably selectively replaced with human residues to provide a hybrid molecule that comprises either a weakly immunogenic or substantially non-immunogenic surface.
  • Suitable replacement amino acids can be obtained from somatic cell hypermutants of the particular VH or VL. Replacement with an amino acid that is naturally present at that position in a human antibody is preferred.
  • the disclosure thus further provides an antibody A, B, C, D, E, A1, R1, C1, D1, or E1 that comprises a humanized heavy chain variable region, a humanized light chain variable region or a combination thereof.
  • the disclosure further provides an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for use in the treatment of a disease in an individual. Also provided is an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for use in the treatment of a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells. Further provided is antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for use in the treatment of a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, and melanoma.
  • a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, and melanoma.
  • an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for the manufacture of a medicament for the treatment of a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells. Also provided is the use of an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for the manufacture of a medicament for the treatment of a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, and melanoma.
  • Also provided is a method for the treatment of an individual that has a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells comprising administering to the individual in need thereof an antibody A, B, C, D, E, A1, B1, C1, D1, or E1.
  • a method for the treatment of an individual that has a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma comprising administering to the individual in need thereof an antibody A, B, C, D, E, A1, B1, C1, D1, or E1.
  • the disclosure also provides a nucleic acid molecule that codes for a heavy chain, a light chain and/or a variable region thereof.
  • a nucleic acid molecule is typically but not exclusively a ribonucleic acid (RNA) or a deoxyribonucleic acid (DNA).
  • RNA ribonucleic acid
  • DNA deoxyribonucleic acid
  • Alternative nucleic acids are available for a person skilled in the art, such as, for instance, peptide nucleic acids (PNA).
  • nucleic acid molecules examples are:
  • a nucleic acid molecule as described herein is preferably used for the production of an antibody A, B, C, D, E, A1, B1, C1, D1 or E1 as described herein by a cell comprising the nucleic acid molecule.
  • a nucleic acid molecule comprising two or more of the indicated sequences comprises such sequence in the order and linkage suitable for the production of an antibody A, B, C, D, E, A1, B1, C1, D1 or E1 as described herein by a cell comprising the nucleic acid molecule.
  • the nucleic acid molecule preferably further comprises one or more sequences for the expression of an antibody as described. Non-limiting examples of such sequences are a promoter, a termination sequence, an enhancer, an intron etc.
  • sequences are not necessarily present on the nucleic acid molecule as such sequences can be provided in cis by the integration site of the nucleic acid molecule in, for instance, a chromosome of a cell, or a vector comprising the nucleic acid molecule.
  • Suitable integration sites in a cellular chromosome can easily be determined and targeted, for instance, by means of homologous recombination.
  • a cell that comprises one or more nucleic acid molecules as described herein.
  • a nucleic acid according to the disclosure is, for instance, comprised in a cell.
  • the nucleic acid is expressed in the cell the translation product of the nucleic acid molecule can be incorporated into an antibody of the disclosure.
  • the disclosure thus also provides a cell comprising a nucleic acid molecule according to the disclosure.
  • the disclosure further provides a cell comprising a nucleic acid molecule of the disclosure and that is capable of producing an antibody of the disclosure.
  • a method for producing an antibody of the disclosure comprising culturing a cell comprising expressing one or more nucleic acid molecules that code for an antibody of the disclosure and harvesting the antibody from the culture medium, the cell or a combination thereof.
  • the cell is preferably an animal cell, more preferably a mammalian cell.
  • the cell is preferably a cell that is normally used for the production of an antibody for use in humans.
  • Non-limiting examples of such cells are CHO, NSO and PER.C6 cells.
  • Cells may specifically designed to suit certain purposes, for instance, most cell lines used for the production of antibodies have been adapted for growth in suspension, in high densities and other properties.
  • a suitable cell is any cell capable of comprising and preferably of producing an antibody according to the disclosure.
  • PCD function of an antibody as claimed is preferably measured in a method based on annexin V positivity in flow cytometry (as described, for instance, in Example 3).
  • ADCC function of an antibody as claimed is preferably measured in a method based on B cell depletion in blood drawn from healthy volunteers measured in flow cytometry by the decrease of CD24 positive cells, negative for myeloid markers, or a classical chromium release assay (as described, for instance, in Example 1).
  • CDC of an antibody as claimed is preferably measured in a method based on 7AAD positivity in flow cytometry (see, for instance, Example 1).
  • CD20 mAbs were generated by cellular immunization and standard fusion of spleen cells to obtain hybridomas. Isotypes were determined by FACS (rat-anti-mIgG2a-biotin (cross-reactive with mlgG2c; BD), goat-anti-mIgG2b-Fc ⁇ -RPE (SouthernBiotech), goat-anti-mIgG3-PerCP (Jackson)). mAbs were purified after growth in serum free medium by affinity chromatography using HiTRap rProteinA FF columns (GE Healthcare). Bound protein was eluted with 0.1 M sodium acetate pH 2.5 (Sigma Aldrich) and directly neutralized with 1 M Tris-HCl pH 8.8.
  • Chimeric IgG1 (IgG1) mAbs were generated by cloning the variable regions (synthesized by Shinegene) into Lonza expression vectors (pEE14.4-kappaLC, pEE14.4-IgG1. The L11V mutation was introduced by site-directed mutagenesis. All IgG1 mAbs were produced by transient transfection of HEK293F cells (22) and purified by ProteinA affinity chromatography. All mAbs were dialyzed to PBS (Sigma-Aldrich) and the concentration was determined using the following formula: OD value at 280 nm/correction factor (mIgG 1.36; chIgG 1.35).
  • RTX (chIgG1; Pharmacy UMC Utrecht), OFA (human (h)IgG1; Pharmacy UMC Utrecht), mouse (m)IgG2a-CD20-7D8 (m7D8) and mIgG2a-CD20-11B8 (m11B8) (kindly provided by Genmab B V, Utrecht, The Netherlands), B1 (mIgG2a, kindly provided by Mark Cragg, Southhampton, UK) and mIgG2a-RTX (mRTX) (Invivogen) were dialyzed to PBS if needed. Abs were labeled with FTTC (Thermo Scientific) or Alexa647 (Molecular Probes) following the manufacturer's instructions.
  • SKBR3 cells were retrovirally transduced with human CD20 to generate SKBR3-CD20 cells.
  • a subclone stably expressing CD20 was established by limiting dilution.
  • EL4-CD20 cells were generated as previously described. (23) Daudi, Ramos, Raji (ATCC), and the above mentioned cells were cultured in culture medium containing RPMI-1640+HEPES+glutamine (Invitrogen) supplemented with 10% fetal calf serum (FCS), 100 U/mL penicillin and 100 ⁇ g/mL streptomycin (Life Technologies) at 37° C./5% CO 2 .
  • FreeStyleTM HEK293F cells (Invitrogen) were cultured in FreeStyleTM 293 expression medium (Invitrogen) at 37° C./8% CO 2 on an orbital shaker.
  • RNA was isolated and purified using a RNeasy mini kit (Qiagen). Purified RNA (2 ⁇ g) was used as templates for cDNA synthesis with a RevertAid H Minus First Strand cDNA synthesis kit (Fermentas). Next, variable light (VL) and variable heavy (VH) regions were amplified in PCR reactions (see Supplementary Materials and Methods). Gel-purified PCR products were cloned into the pCRII blunt TOPO vector (Life Technologies) and transformed into DH5a E. coli . Plasmid DNA was isolated from several clones using a QiAprep spin miniprep kit (Qiagen).
  • CD20 peptide library was described elsewhere. (20) Briefly, both linear and cyclic peptides, with loops of different sizes, covering the 2 extracellular loops were directly synthesized onto polypropylene plates. (25,26) Linear and discontinuous epitopes were reconstructed and for each peptide and a full amino acid scan was included (see Supplementary Materials and Methods).
  • HEK293F cells were transfected with vectors coding for wild-type or mutated CD20 using 293fectin (Invitrogen) following the manufacturer's instructions. One day post-transfection, cells were harvested, washed in FACS buffer and stained for 30 minutes with 5 ⁇ g/mL CD20 mAbs on ice. mAb binding was detected with a goat-anti-hIgG-APC or goat-anti-mIgG-APC Ab (Jackson). Cells were measured on a FACS Canto II (BD).
  • mice C57BL/6 mice were purchased from Janvier (France) or bred in the facilities. 4-6 mice/group were injected intraperitoneally (i.p.) with 5 ⁇ 10 5 CellTraceViolet (10 ⁇ M, Invitrogen)-labeled EL4-CD20 cells. After 16 hours, mice were treated with mAb or PBS (100 ⁇ L) injected i.p. A peritoneal lavage with PBS containing 5 mM EDTA was performed after 24 hours and the amount of remaining tumor cells was determined using TruCount tubes (BD). All experiments were approved by the Animal Ethical Committee of the UMC Utrecht.
  • BD TruCount tubes
  • the PCR reaction contained 25 ng cDNA, 1 ⁇ AccuPrime mix (Life Technologies), 25 pmol 5′ and 3′ primers (Biolegio) annealing to the cDNA encoding the signal peptide and to the constant region of the antibody, respectively, and AccuPrimeTM Pfx DNA Polymerase (Life Technologies) according to manufacturer's instructions.
  • Amplification consisted of initialization at 95° C. for 2 minutes, followed by 34 cycles of denaturation at 95° C. for 30 seconds, annealing at 55 or 60° C. for 30 seconds, and extension at 68° C. for 2.5 minutes, finally the 34 cycles were followed by an extension step at 68° C. for 7 minutes.
  • PCR tubes were maintained at 4° C. until further processing.
  • Single-domain and double-domain peptides covering the 2 extracellular CD20 loops were used to reconstruct linear and discontinuous epitopes.
  • a full positional aa scan i.e., each position is replaced by all other aa
  • the second part of the library consisted of cyclic peptides by introducing cysteine-based loops using the Pepscan technology (www.pepscan.n1).
  • the following peptides were included: (a) all overlapping linear 34-mers covering the large loop, including a full alanine-scan of each 34-mer peptide; (b) 34 overlapping peptides from the large loop and 1 peptide from the small loop were combined in a matrix of 35 ⁇ 35 with each other in order to map discontinuous epitopes that are spread over two different parts; (c) all overlapping linear 15-mers covering complete CD20; (d) a full positional aa scan (excluding cysteine) of YNCEPANPSEKNSPSTQYCYS (SEQ ID NO:16); (e) one double-looped small loop covering peptide; (f) single-looped peptides of varying size covering the large loop to capture conformational epitopes that depend on a particular loop size and (g) all overlapping single-looped 15-mers covering the complete extracellular sequence of the CD20 molecule.
  • a panel of novel CD20 mAbs was generated and characterized in detail. After fusion of spleen B-cells of 6 immunized mice, 17 stable hybridoma clones producing mIgG2c—, mIgG2b- and mIgG3-CD20 mAbs (Table 1) were obtained. For 14 out of 17 CD20 mAbs, unique VH and VL chain sequence pairs with differing degrees of relatedness ( FIGS. 1 . 1 and 1 . 2 ) were retrieved.
  • Type I/II mAbs As a shared feature of Type I/II mAbs, specific cell lysis in an ADCC assay using Daudi cells as targets and PMBC as effectors ( FIG. 2 B ) was determined. A comparable degree of lysis was obtained with all mIgG2c-CD20 mAbs. In contrast, m1gG2b mAbs were less effective. Remarkably, CDC activity, the MoA only elicited by Type I mAbs, differed considerably amongst the CD20 mAbs ( FIG. 2 C ).
  • CDC was analyzed over a wider concentration range on Daudi cells, a cell line sensitive for complement-mediated lysis due to high CD20 and low complement-regulatory protein (CRP) expression ( FIG. 3 A ).
  • m1 and m9 showed the highest CDC activity, in particular, between 0.1-3 ⁇ g/mL mAb.
  • m10 displayed intermediate CDC potency, and m2 was the least potent.
  • the better CDC induction by m1 compared to m2 was also detected in assays with Ramos and Raji cells, which have decreasing CD20 and increasing CRP expression ( FIG. 3 B ).
  • m1 and m2 both mIgG2c-CD20 mAbs but highest/lowest in CDC, were subjected to a detailed epitope mapping analysis applying the PepScan-technology.
  • Critical residues of m1 were identified to be 168 EPANPSEK 175 by using linear ( FIG. 21 A ) and circular ( FIG. 4 A , left) peptides with a positional amino acid scan covering the larger extracellular loop.
  • the signal for binding of m2 to the linear ( FIG. 21 B ) and circular ( FIG. 4 A , right) peptide was rather low.
  • RTX RTX epitope region
  • the two single mutants A170P and P172A made it possible to identify the contributing amino acids within the A170S/P172S double-mutant.
  • the A170P mutation did not affect mAb binding.
  • the P172A mutant influenced binding of all new CD20 mAbs, except for m2, m9 and m11. Residue S173 was identified to be important for the binding of mRTX, m1, m4 and m10. Overall, the epitope of most new CD20 mAbs can be narrowed down to 170 ANPSE 174 , however different amino acids are required for binding.
  • CD20 mAbs Show Variation in Binding Stability
  • a slow Ab off-rate might favor the formation of Ab-C1q complexes, the first component of the classical complement pathway.
  • FACS-based dissociation assays hinted at unique dissociation behaviors of m1 and m2 ( FIGS. 22 A, 22 B ), suggesting a faster off/on-rate for m2.
  • the LigandTracer technology was used to record real-time binding and dissociation of Abs to cellular receptors. Kinetics analysis was performed for all 4 mIgG2c-CD20 mAbs under non-competitive ( FIG. 5 A , left) and competitive ( FIG. 5 A , right) conditions and detected differences in their binding behavior.
  • IgG1-CD20-1 induced PCD, a property lost upon insertion of the V11L mutation.
  • IgG1-CD20-2 neither the parental nor the mutated versions induced PCD. This indicates that the MoA can change upon chimerization and that the elbow angle determining region plays a crucial role in it.
  • RTX chlorIgG1
  • OFA hIgG1
  • OBZ glycoengineered hIgG1 Fc-region for enhanced ADCC
  • ADCC and CDC Type I; RTX and OFA
  • ADCC and PCD Type II; OBZ
  • the epitope was determined, binding kinetics and structural properties based on a mutation at Kabat position 11.
  • the C-terminal part of the larger loop of CD20 was found to be relevant for B1 and OBZ binding, suggesting that this epitope is important for the Abs' Type II features.
  • B-Ly1 the parental Ab of OBZ, (30) does not display the complete Type II characteristics before humanization.
  • the epitope of Type II mAb 11B8 is not overlapping, but comprised of amino acids located on the small and large extracellular loop, similar to 7D8 and OFA. 10 out of 11 of the mAbs bound in the same region as RTX.
  • residue S173 is relevant in determining the type of epitope. Binding of m1 (linear epitope) is abrogated upon mutation of residue S173. In contrast, m2 binding (conformational epitope), is much less affected. This varying recognition results in an alteration of the binding behavior and in depth analysis suggests that it has an impact on the capacity of the mAb to create secondary interactions.
  • RTX chimeric (ch)IgG1)
  • OFA Ofatumumab
  • TRA Trastuzumab
  • IgG1-CD20-1 and IgG1-CD20-2 The generation of the new chimeric IgG1 mAbs IgG1-CD20-1 and IgG1-CD20-2 was described in Chapter 7. IgG1-CD20-7, IgG1-CD20-9, and IgG1-CD20-10 were made by U-Protein (Utrecht), who produced the mAbs in HEK293T cells. All mAbs were dialyzed to 1 ⁇ PBS (Sigma-Aldrich) and the concentration was determined using the following formula:
  • Daudi cells were cultured in RPMI culture medium containing RPMI-1640+HEPES+glutamine (Invitrogen) supplemented with 10% fetal calf serum (FCS) and 100 U/mL penicillin and 100 ⁇ g/mL streptomycin (1 ⁇ P/S; Life Technologies) at 37° C./5% CO 2 .
  • EL4-CD20 cells were generated as previously described (23) and cultured in RPMI culture medium.
  • % ⁇ lysis counts sample - counts minimal ⁇ release counts maximum ⁇ release - counts minimal ⁇ release ⁇ 100.
  • Daudi cells were plated out in a 96-well plate and pre-incubated for 30 minutes at room temperature with mAbs diluted in RPMI culture medium. Human serum (pooled from 8 healthy donors) as complement source (final concentration 15.5%) was added and the preparation kept for the 15 minutes at 37° C./5% CO 2 . The degree of complement-mediated lysis was assessed by staining dead cells with 7-AAD (BD Pharmingen). Cells were measured on a FACS Canto II (BD).
  • mAbs were diluted in RPMI-1640+HEPES+glutamine (Invitrogen) and unprocessed blood was added. After incubation of the plates for 60 minutes at 37° C./5% C02 samples were kept on ice for all further steps. Leukocytes and CD19 + cells were stained by adding mouse-anti-hCD45-PO (Life Technologies) and mouse-anti-hCD19-APC (Biolegend) for 30 minutes.
  • mice C57BL/6 mice were purchased from Janvier (Le Genest Saint Isle, France). 6 mice/group were injected intraperitoneally (i.p.) with 5 ⁇ 10 5 CellTraceViolet (10 ⁇ M, Invitrogen)-labeled EL4-CD20 cells. After 16 hours, mice were treated with 10 ⁇ g mAb or PBS (100 ⁇ L) injected i.p. A peritoneal lavage with 1 ⁇ PBS containing 5 mM EDTA was performed after 24 hours. The amount of remaining tumor cells was determined using TruCount tubes (BD). All experiments were approved by the Animal Ethical Committee of the UMC Utrecht.
  • BD TruCount tubes
  • CD20 mAbs the antigen-binding capacity of all chimerized CD20 mAbs were tested. They specifically bound to CD20 positive Daudi cells ( FIG. 8 ). Their binding pattern was comparable to the commercially available CD20 mAbs RTX (chIgG1) and OFA (hIgG1).
  • FIG. 9 A The percentage of maximal lysis at 1 ⁇ g/mL mAb ranged between 38% (IgG1-CD20-1) and 49% (IgG1-CD20-10).
  • maximal lysis was slightly higher for the commercial mAbs RTX and OFA, at lower concentrations, IgG1-CD20-2, IgG1-CD20-9, and IgG1-CD20-10 performed better than RTX.
  • Tumor cell killing by activation of the complement system is the second effector mechanism commonly induced by IgG1-CD20 mAbs.
  • the chIgG1-CD20 mAbs showed a concentration dependent tumor cell lysis ( FIG. 9 B ). All mAbs induced a higher degree of CDC compared to RTX.
  • IgG1-CD20-2 remained the least potent one.
  • IgG1-CD20-1 and IgG1-CD2-10 performed similar, and IgG1-CD20-7 even better than OFA at lower concentrations.
  • CD20 mAbs tumor cell death by programmed cell death (PCD). This property is strongly induced by so called Type II CD20 mAbs like Obinutuzumab (OBZ) (12) and B1 (mIgG2a CD20 mAb). (13) RTX was shown to kill tumor cells to a lower extent via the same caspase-independent pathway. (13) None of the parental mouse CD20 mAbs induced neither homotypic aggregation, as sign for cell death induction, nor an increase in 7-AAD and AnnexinV positivity. As described in Example 1, IgG1-CD20-1 induced PCD of EL4-CD20 cells. Here, the full IgG1-CD20 mAb panel was compared, however, for the other 4 CD20 mAbs, chimerization did not change these characteristics ( FIG. 9 C ).
  • OBZ a potent ADCC and PCD inducer, was shown to prolong survival of SCID mice more efficiently than RTX in a NHL xenograft model. (12) However, the individual contribution of ADCC or PCD to the efficacy has not been evaluated yet.
  • CD20 mAbs The potential of CD20 mAbs has been studied extensively in whole blood B-cell depletion assays. Commonly, 4 hours to 24 hours incubation times were used. (12, 50, 51) It was shown that OBZ exhibits superior and faster killing of B cells in an autologous setting of healthy but also patient donor blood compared to RTX. However, in those assays all effector mechanisms are likely to contribute.
  • the mAbs was incubated for 1 hour with unprocessed blood. This set-up is beneficial for the evaluation of complement-mediated rather than effector cell-mediated tumor cell killing. CDC is quickly induced, whereas NK-cell-mediated tumor cell eradication requires longer incubation times. This possibly explains the poor results obtained with RTX, the weakest complement activator.
  • IgG1-CD20 monoclonal antibodies like rituximab, ofatumumab and obinutuzumab are used in the clinics to treat patients diagnosed with different kinds of B-cell malignancies.
  • IgG1-CD20 mAbs various mechanisms-of-action are known to contribute to the eradication of tumor cells: 56-61) (a) antibody-dependent cytotoxicity and phagocytosis (ADCC/ADCP) mediated by the engagement of Fc gamma receptors (Fc ⁇ R) on predominantly natural killer cells and monocytes/macrophages; (b) activation of the classical complement pathway by binding C1q, resulting in tumor cell lysis by CDC; (c) induction of PCD upon direct binding to CD20 molecules.
  • ADCC/ADCP antibody-dependent cytotoxicity and phagocytosis
  • Fc ⁇ R Fc gamma receptors
  • IgA is the second most prominent antibody in blood, after IgG, and the predominant Ab at the mucosa.
  • the monomeric version of IgA is mostly found in serum, whereas polymeric IgA is produced at mucosal sites.
  • the 2 Ab subclasses, IgA1 and IgA2 differ structurally in their hinge regions, which is 13 amino acids longer for IgA1 than for IgA2. This might enable an improved reach for antigens that are distant, but at the same time makes it more prone to degradation by proteases. (36)
  • the hinge region of IgA1 mAbs carries several O-linked glycosylation sites, which are absent in IgA2 mAbs.
  • IgA2 exists as 3 allotypes; IgA2(m1) has 2 additional N-linked glycosylation sites compared with IgA1, and IgA2(m2) and IgA2(n), which have 3 additional N-linked glycosylation sites. Contrary to IgG, IgA is a weak activator of the classical complement pathway as it cannot bind C1q. (37) However, IgA mAb have been shown to activate the complement system through the lectin pathway, as the carbohydrate recognition domain (CRD) of mannan-binding lectin (MBL) can bind to IgA. (38)
  • IgA engages immune effector cells by binding to the Fc ⁇ RI (CD89), which is expressed on cells of the myeloid lineage: neutrophils, monocytes, different macrophage populations and eosinophils. (39) Expression on in vitro generated dendritic cells was shown, (23, 24) but remains controversial. Neutrophils express high levels of the Fc ⁇ RI, while macrophages have lower expression. (42) In ADCC assays with IgA mAbs targeting solid tumor targets, neutrophils have been shown to efficiently eradicate tumor cells. (43-46) In contrast, IgG1 mAbs were less able to engage this effector cell population.
  • Monocyte/macrophage-mediated tumor cell killing was shown to be comparable between IgA and IgG mAbs (44)
  • macrophages Next to the activating Fc ⁇ RIIIa, macrophages also express the inhibitory Fc ⁇ RIIb. It has been shown that the presence of Fc ⁇ RIIb reduces mAb activity. (47) For IgA, no inhibitory receptor has been described yet.
  • Described here is the preliminary in vitro characterization of unique IgA1- and IgA2-CD20 mAbs.
  • the previously generated mIgG2c-CD20 mAbs m1 and m2 (Example 1) were selected to be produced as IgA1 and IgA2 variants. Their preliminary in vitro characterization revealed promising potential.
  • rituximab (RTX; Pharmacy UMC Utrecht), anti-hCD20-hIgA2 (IgA2-RTX; InvivoGen), anti-hCD20-hIgA1 (IgA1-RTX; InvivoGen); IgA1- and IgA2(m1)-Her2 (own production), ofatumumab (OFA, Pharmacy UMC Utrecht), B1 (mIgG2a-CD20 mAbs, kindly provided by Mark Cragg, University Southhampton, UK), and trastuzumab (TRA, Pharmacy UMC Utrecht).
  • the Burkitt lymphoma cell lines Ramos and Raji were maintained in RPMI culture medium containing RPMI-1640+HEPES+glutamine (Invitrogen) supplemented with 10% FCS and 1 ⁇ P/S at 37° C./5% CO 2 .
  • EL4-CD20 cells were generated as previously described (23) and cultured in RPMI culture medium.
  • variable heavy and light chain (HC and LC) sequences (synthesized by ShineGene) were flanked by the HindIII and NotI restriction sites.
  • the variable regions were cloned into the Lonza vectors pEE14.4-kappaLC, pEE14.4-IgA1, and pEE14.4-IgA2(m1).
  • HEK FreeStyleTM 293F Cell (Invitrogen) system was used as previously described. (22) Briefly, HEK293F cells were transfected with LC, HC and pAdVAntageTM Vector (Promega) DNA diluted in Opti-MEM (Life Technologies) together with 293fectinTM Transfection Reagent (Life Technologies). After 4 hours 1 ⁇ P/S (Gibco) was added. Supernatant was harvested 4 days post transfection, filtered and stored until purification at 4° C.
  • a 96-well plate (NUNC maxisorp) was coated with goat-anti-huKappa (Southern Biotech) diluted in 1 ⁇ PBS (Sigma-Aldrich) at 4° C. overnight. After blocking with 1% BSA/0.05% Tween-PBS and washing with 0.05% Tween-PBS, samples were added and incubated for 90 minutes at room temperature. Samples and standards were diluted in 1% BSA/0.05% Tween-PBS. Purified huIgA (Bethyl Lab) was used as a standard for IgA mAbs.
  • Washed plates were incubated with goat-anti-human IgA-HRP (Southern Biotech) diluted in 0.05% Tween-PBS as secondary antibody for 1 hour at room temperature. Round antibodies were detected with ABTS (Roche) and subsequent measurement at 405 nm with a Multiscan RC (Thermolab systems).
  • Ramos cells were plated out in a 96-wells plate and incubated with mAb diluted in 1 ⁇ PBS for 45 minutes on ice. After extensive washing, bound Abs were detected by incubating the cells for 45 minutes on ice with goat-F(ab′)2-anti-humanIgA-RPE (Jackson ImmunoResearch). Cells were fixed with 1% paraformaldehyde before measuring them on the FACS Canto II (BD).
  • EL4-CD20 cells were incubated with 1 ⁇ g/mL mAb for 24 hours at 37° C.
  • Cross-linking Abs (20 ⁇ g/mL rabbit F(ab′) 2 -anti-hIgG; 50 ⁇ g/mL rabbit F(ab′) 2 -anti-mIgG, and 20 ⁇ g/mL goat F(ab′) 2 -anti-human serum IgA; Jackson) were added 30 minutes after incubation of the cells with the CD20 mAbs.
  • Samples were collected, washed with Annexin V binding buffer and incubated with a mix of AnnexinV-APC and 7-AAD (both BD Pharmingen) for 15 minutes at room temperature. Cells were measured on a FACS Canto H and the extent of programmed cell death was determined as % AnnexinV + 7-AAD + +% AnnexinV + cells.
  • leukocytes were isolated from healthy donor blood collected in Heparine tubes by Histopaque-ficoll density gradient and subsequent lysis of residual erythrocytes using eryhtrocyte lysis buffer (155 Mm ammonium chloride, 0.1 mM EDTA and 10 mM potassiumbicarbonate, pH 7.4). Isolated leukocytes were combined with antibody dilutions in a 96-well plate at 0.2 ⁇ 10 6 leukocytes/well and incubated for 3 hours at 37° C./5% CO 2 .
  • eryhtrocyte lysis buffer 155 Mm ammonium chloride, 0.1 mM EDTA and 10 mM potassiumbicarbonate, pH 7.4
  • % ⁇ lysis counts sample - counts minimal ⁇ release counts maximum ⁇ release - counts minimal ⁇ release ⁇ 100.
  • the IgA1 and IgA2 mAbs were produced by transfection of HEK293F cells. First, the optimal ratio between heavy chain, light chain and pAdvantage DNA was determined in a small scale test transfection. For all mAbs, a 1:2:1 ratio to result in the highest production ( FIG. 12 A ) was found. The new mAbs were subsequently produced by a linear upscaling approach. The full-size mAbs were isolated by a two-step purification protocol, including 1) anti-kappa purification ( FIG. 12 B ) and 2) size-exclusion chromatography (SEC) ( FIG. 12 C ).
  • SEC size-exclusion chromatography
  • IgA1 samples contained higher levels of loose kappa light chains ( FIG. 12 C left).
  • IgA2 samples contained more Ab conjugates (shorter retention time; FIG. 12 C right).
  • the yields of full-size mAbs obtained after SEC were comparable between both subclasses. Purity and integrity of the purified IgA mAbs was assessed by SDS-PAGE (data not shown).
  • IgG-CD20 mAbs A subset of IgG-CD20 mAbs, known as Type II CD20 mAbs, induces PCD upon binding to their target.
  • the IgA mAbs was subjected to a cell death induction assay.
  • the incubation of EL4-CD20 tumor cells with the mAbs for 24 hours led to a marginal increase of PCD by the new IgA-CD20 mAbs ( FIG. 14 ). This was slightly more pronounced for IgA1 than IgA2 mAbs.
  • IgG1- and IgA-CD20 mAbs were compared to induce CDC.
  • Complement-mediated lysis of Daudi cells was observed already after 15 minutes with IgG1-CD20 mAbs, but not with IgA-CD20 mAbs ( FIG. 15 A ).
  • Minor CDC induction by IgA-CD20-1 mAbs was seen after 60 minutes incubation with complement active serum, which increased with longer incubation times.
  • Ramos cells which express less CD20, but higher levels of CD46 and CD59 than Daudi cells, were more susceptible to CDC ( FIG. 15 B ).
  • IgA1-CD20 complement-mediated lysis was delayed but reached a comparable level as IgA2-CD20 mAbs after 240 minutes.
  • CDC assays were performed in the presence of different complement inhibitors ( FIG. 15 C ).
  • the lysis induced by IgA-CD20-1 mAbs was abolished when heat-inactivated serum and serum pre-treated with eculizumab (anti-C5 mAb), was used.
  • EGTA+MgC 2 was used to inhibit the classical and lectin pathway. Lysis was reduced to background levels not only for IgG1, but also by IgA-CD20-1 mAbs.
  • the potential of the IgA-CD20 mAbs to deplete human B cells was then analyzed. Incubation of leukocytes from healthy donors with the mAbs resulted in a concentration-dependent decline of CD19 + events ( FIG. 16 A ). This effect was comparable between RTX and the IgA-CD20 mAbs. The number of CD19 + events ( FIG. 16 B ) steadily decreased for all IgA-CD20 mAbs and reached a plateau between 0.05 and 0.5 ⁇ g/mL mAbs.
  • the number of CD19 + events upon RTX incubation reached a minimum at 0.05 ⁇ g/mL, but increased at higher concentrations again.
  • the number of CD19′ events reached an optimum between 0.05 to 0.5 ⁇ g/mL ( FIG. 16 C ).
  • IgG1-CD20 mAbs e.g., Obinutuzumab and B1 elicit tumor cell killing upon binding to CD20 (Fab-mediated effect).
  • PCD with IgG1-CD20-1 was observed, but not IgG1-CD20-2.
  • IgA-CD20-1 and IgA-CD20-2 induced PCD, albeit at a low level, indicating that this mechanism-of-action for IgA mAbs is independent of the epitope.
  • other known antibodies that differ in their PCD capacity as IgG1 and target different epitopes e.g., RTX and Obinutuzumab
  • IgG1-CD20 mAbs activate the classical complement pathway by binding C1q. However, the activation of this pathway is unlikely for IgA mAbs as they lack the C1q recognition site.
  • IgA Abs isolated from human serum bind MBL.
  • Pascal and colleagues showed that IgA2-CD20 mAbs lyse a subset of CD20 + tumor cell lines by directly activating the alternative and indirectly engaging the classical pathway. (39) With the data, the involvement of CDC in tumor cell killing by IgA mAbs was confirmed.
  • C1q depleted serum can be used to block the classical pathway, Factor B depleted serum for inhibition of the alternative pathway, and MASP-1 or MASP-2-specific inhibitors to block the lectin pathway. (75, 76)
  • IgA2 mAbs are faster at inducing CDC than IgA1 mAbs.
  • ADCC by Fc ⁇ RI expressing effector cells has been shown to be mediated faster by PMNs than by monocytes/macrophages.
  • CD19 + B cells were depleted in an autologous setting in the absence of a complement source.
  • mAb-mediated depletion of CD19 + cells was generally better for IgA-CD20 mAbs than for RTX, with IgA1-CD20 mAbs performing the best.
  • both isotypes induce the loss of CD19 expression. This is in line with previously published findings that B cells from healthy donors incubated with RTX lose their CD19 expression without undergoing cell death.
  • RTX The therapeutic dose of RTX should be carefully determined, as too high concentrations were shown to decrease Ab efficacy in the in vitro B-cell depletion assay. In contrast, this effect was not observed with IgA-CD20 mAbs. Nonetheless, as CD20 mAbs modulate the expression of B-cell markers, B-cell tracking might represent a better approach to properly determine mAb-mediated B-cell depletion.
  • the human body uses IgA do defend itself against pathogens, predominantly on the mucosa barrier. It kills pathogens either via direct mechanisms or via neutrophil activation. Very low quantities of IgA can effectively trigger neutrophils via the Fc ⁇ receptor (Fc ⁇ R). Importantly, neutrophils are far more effective killer cells than NK cells and possess excellent tissue penetration capacity. Thus, IgA seems an attractive antibody class for tumor immunotherapy. Nevertheless, it is difficult to develop clinical IgA antibodies. Until recently, there were no good in vivo model systems for IgA immunotherapy since mice lack expression of the Fc ⁇ R. The research group has developed a transgenic mice that expresses human Fc ⁇ R (CD89) on neutrophils.
  • CD89 human Fc ⁇ R
  • Fc ⁇ R expression on target cells themselves is critical for this Ab-CD20 complex internalization.
  • the inhibitory FcR, Fc ⁇ RIIb expressed on certain types of B-cell malignancies, also plays a role in Ab-CD20 complex internalization.
  • Fc ⁇ RIIb contains an immunoreceptor tyrosine-based inhibitory motif that recruits specific phosphatases and acts to oppose signaling by activating Fc ⁇ Rs.
  • Fc ⁇ RIIb-mediated internalization of rituximab from the B-cell surface was shown to limit effector cell engagement, an effect that may be particularly important in malignancies such as chronic lymphocytic leukemia and mantle cell lymphoma that express high levels of Fc ⁇ RIIb and show reduced responses to CD20 mAb therapy.
  • PBMC peripheral blood mononuclear cells
  • PBMC peripheral blood mononuclear cells
  • 5 ⁇ 10e4 isolated B cells were seeded in conical 96 wells plates and incubated with 1 ug/ml AlexaFluor 488 (AL488) labeled (Molecular Probes) Ab for 3 hours at 37° C./5% CO2. Unbound Ab was washed away and the AL488 signal quenched using 25 ug/ml goat-anti-AL488 (life technologies). % remaining CD20 is calculated as ((MFI unquenched ⁇ MFI quenched)/MFI unquenched) ⁇ 100.
  • mice C57BL/6 mice were purchased from Janvier (France) or bred in the facilities. 4-6 mice/group were injected intraperitoneally (i.p.) with 5 ⁇ 105 CellTraceViolet (10 ⁇ M, Invitrogen)-labeled EL4-CD20 cells. After 16 hours, mice were treated with mAb or PBS (100 ⁇ l injected i.p. A peritoneal lavage with PBS containing 5 mM EDTA was performed after 24 hours and the amount of remaining tumor cells was determined using TruCount tubes (BD). All experiments were approved by the Animal Ethical Committee of the UMC Utrecht.
  • FIG. 13 and FIG. 14 The ability of the antibodies to bind to CD20-expressing Ramos cells and the functionality of the antibodies on PCD are depicted in FIG. 13 and FIG. 14 .
  • the ability of IgG1- and IgA-CD20 mAbs to induce CDC is depicted in FIGS. 15 A- 15 C (see also Example 3).
  • the ability of the new IgA-CD20 mAbs to induce PMN-mediated tumor cell lysis in a chromium release assay is depicted in FIGS. 27 A, 27 B .
  • IgA1 antibodies do have similar ADCC potential, but IgA1-CD20 UMAB007 is the most effective ( FIG. 27 A ).
  • IgA2 antibodies For IgA2 antibodies, all antibodies show a similar effectivity, but IgA2-CD20 UMAB010 has the highest killing potential ( FIG. 27 B ).
  • IgA2-CD20 UMAB010 has the highest killing potential ( FIG. 27 B ).
  • the ability of the IgA-CD20 mAbs to deplete human B cells was analyzed. Incubation of leukocytes from healthy donors with the mAbs resulted in a concentration-dependent decline of CD19+ events ( FIG. 16 A ). This effect was comparable between RTX and the IgA-CD20 mAbs. The number of CD19 ⁇ events ( FIG. 16 B ) steadily decreased for all IgA-CD20 mAbs and reached a plateau between 0.05 and 0.5 ⁇ g/mL mAbs.

Abstract

The invention is related to CD20 antibodies with improved characteristics. Some embodiments describe antibodies comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” on human CD20 expressed on Ramos cells and which antibody has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype.

Description

    CROSS-REFERENCE TO RELATED APPLICATIONS
  • This application is a continuation of U.S. application Ser. No. 16/329,726, filed Feb. 28, 2019, which is a national phase entry under 35 U.S.C. § 371 of International Patent Application PCT/NL2017/050581, filed Sep. 1, 2017, designating the United States of America and published in English as International Patent Publication WO 2018/044172 A1 on Mar. 8, 2018, which claims the benefit under Article 8 of the Patent Cooperation Treaty to European Patent Application Serial No. 16186850.0, filed Sep. 1, 2016, all of which are hereby incorporated by reference in their entirety.
    • TECHNICAL FIELD
  • The disclosure relates to the field of antibodies. In particular, it relates to antibodies that bind CD20. It further relates to the use of CD20 antibodies in medical and detection methods. The disclosure further relates to cells, nucleic acid molecules and methods for the production of the antibodies.
    • SEQUENCE LISTING
  • The instant application contains a Sequence Listing which has been submitted electronically in ASCII format and is hereby incorporated by reference in its entirety. Said ASCII copy, created on May 3, 2022, is named 199828-702301_SL.txt and is 28,672 bytes in size.
    • BACKGROUND
  • Three CD20 mAbs have been approved for the treatment of various subtypes of Non-Hodgkin's lymphomas and leukemias (NHL). Rituximab (RTX), the first mAb on the market, has significantly improved survival of patients when given in combination with chemotherapy regimens.(1-5) Ofatumumab (OFA) was selected based on its ability to activate the classical complement pathway, leading to membrane disruption and complement-dependent cytotoxicity (CDC). Clinical trials highlighted its emerging potential in combination therapies and maintenance of e.g., chronic lymphocytic leukemia (CLL) patients.(6,7) Obinutuzumab (OBZ; GA101), a CD20 mAb with enhanced FcγRIII binding and direct programmed cell death (PCD) induction capacity, has been approved for first-line treatment of CLL(20) and RTX refractory follicular NHL.(9)
  • In vitro, CD20 mAbs can induce antibody-dependent cell-mediated cytotoxicity/phagocytosis (ADCC/ADCP), CDC or PCD. Depending on their mechanism-of-actions (MoA), CD20 mAbs are grouped into Type I and Type II. Both Type I and II mAbs elicit ADCC Type I mAbs, including RTX and OFA, relocate CD20 into lipid rafts and efficiently activate the complement system.(10) Type II mAbs induce PCD via a caspase-independent pathway.(11) The only described Type II mAbs are OBZ,(12) B1,(13) and 11B8.(14) Interestingly, RTX was shown to induce PCD via the same pathway in lymphoma cell lines and primary CLL cells, but to a lower extent than Type II mAbs.(15) Most recently, a CD20 mAb displaying Type I and Type 1H characteristics in vitro was described.(16)
  • In literature, three features were suggested to govern Type I/H classification: (a) the epitope, (b) binding kinetics and (c) residues within the elbow-hinge angle determining region of the VH chain framework.
  • Human CD20 comprises a small (residue 72-80) and larger (residue 140-186) extracellular loop. The epitope of RTX is located on the larger loop with 170ANPS173 representing the core binding region.(17) Mutagenesis experiments confirmed N171 to be an important residue for RTX.(18) For RTX and another panel of Type I mouse CD20 mAbs A170 and P172 were determined to be important.(19, 20) Although Type II mAbs OBZ and B1 have an overlapping epitope(170 ANPSEKNSP178 (SEQ ID NO: 15)) with RTX, residues 176-178 contribute most to the binding.(18) In contrast, the epitope of the Type I mAb OFA and Type II mAb 11B8 is comprised by residues on the small and larger loop.(20) As OFA recognizes this unique epitope and efficiently activates complement, it was suggested that the membrane-proximal binding results in a beneficial orientation of the available Fc-fragments allowing better complement deposition. Additionally, Ab kinetics were proposed to correlate with the CDC activity of CD20 mAbs, as the strong complement inducer OFA dissociates significantly more slowly from CD20 than RTX with an intermediate CDC capacity.(14) Further evidence supporting the contribution of a slower off-rate to better CDC induction comes from studies with the CD20 mAb veltuzumab.(21)
  • Next to antigen binding properties, a structural Ab feature was suggested. During the humanization of BLy-1 (Type I) to OBZ (Type II) a L11V mutation was introduced in the VH chain framework. The reverse mutation in OBZ resulted in loss of PCD induction.(12) Modeling of RTX and OBZ indicated that the L11V mutation results in a wider Ab elbow-hinge angle for OBZ (167°) compared to RTX (140°).(18)
  • Although various CD20 antibodies are known there is still little known about the properties that determine the mechanism-of-action of CD20 mAbs.
    • BRIEF SUMMARY
  • The disclosure shows novel CD20 antibodies. All antibodies display Type I characteristics whereas some of these also display Type II characteristics. It was found that neither the epitope, nor the off-rate are by themselves is enough to predict whether a CD20 antibody exhibits a Type I, a Type II or Type I/II activity.
  • This disclosure further provides CD20 antibodies with a human IgA constant region. IgA is the second most prominent antibody in blood, after IgG, and the predominant Ab at the mucosa The monomeric version of IgA is mostly found in serum, whereas polymeric IgA is produced at mucosal sites. The 2 Ab subclasses, IgA1 and IgA2, differ structurally in their hinge regions, which is 13 amino acids longer for IgA1 compared to IgA2. This might enable an improved reach for antigens that are distant, but at the same time makes it more prone to degradation by proteases.(36) Furthermore, the hinge region of IgA1 Abs carries several O-linked glycosylation sites, which are absent in IgA2 Abs. IgA2 exists as 3 allotypes; IgA2(m1) which has 2 additional N-linked glycosylation sites compared with IgA1, and IgA2(m2) and IgA2(n), which have 3 additional N-linked glycosylation sites. Contrary to IgG, IgA is a weak activator of the classical complement pathway as it cannot bind C1q.(37) However, IgA mAbs have been shown to activate the complement system through the lectin pathway, as the carbohydrate recognition domain (CRD) of mannan-binding lectin (MBL) can bind to IgA.(38)
  • IgA engages immune effector cells by binding to the FcαRI (CD89), which is expressed on cells of the myeloid lineage: neutrophils, monocytes, different macrophage populations and eosinophils.(39) Expression on in vitro generated dendritic cells was shown,(40,41) but remains controversial. Neutrophils express high levels of FcαRI, while macrophages have lower expression.(42) In ADCC assays with IgA mAbs targeting solid tumor targets, neutrophils have been shown to efficiently eradicate tumor cells.(43-46) In contrast, IgG1 mAbs were less able to engage this effector cell population. Monocyte/macrophage-mediated tumor cell killing was shown to be comparable between IgA and IgG mAbs.(43) Next to the activating FcγRIIIa, macrophages also express the inhibitory FcγRIIb. It has been shown that the presence of FcγRIIb reduces mAb activity.(47) For IgA, no inhibitory receptor has been described yet. The knowledge on IgA mAb targeting tumor-associated antigens has increased significantly over the last few years. Several bottlenecks faced a few years ago are now overcome, and are currently able to produce and purify sufficient amounts of monomeric IgA mAbs for in vitro and in vivo testing. Mice lack a receptor for IgA, therefore the generation of human FcαRI transgenic now allows in vivo testing.(48) Boross and colleagues eventually showed in an immunocompetent tumor model the great potential of IgA mAbs in a therapeutic setting.(44) The majority of IgA mAbs studied so far are targeting HER2 or EGFR, antigens expressed on solid tumors. Only one study has looked at the potential of monomeric IgA-CD20 mAbs.(49) Complement-mediated tumor cell killing was demonstrated to rely on weak indirect activation of the classical pathway and more pronounced direct activation of the alternative pathway. With a passive immunization strategy in FcαRI transgenic mice, a good protection against tumor development with monomeric IgA2-CD20 mAbs was achieved. However, therapeutic in vivo testing for IgA-CD20 mAbs has not yet been performed. Further, a direct comparison of IgA1 and IgA2 mAbs, in particular, with respect to their complement activation properties is lacking. The disclosure describes unique IgA1- and IgA2-CD20 mAbs.
  • The disclosure provides an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (one letter code for Glu Pro Ala Asn Pro Ser Glu Lys (SEQ ID NO:31)) on human CD20 expressed on Ramos cells and which antibody has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype.
  • The disclosure also provides an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SNSYGSTYWYFDV (SEQ ID NO:21).
  • The disclosure further provides an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANPsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • Also provided is an antibody that can bind to an extracellular part of human CD2 expressed on Ramos cells, the antibody comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence YYYGSSYGAMDY (SEQ ID NO:22).
  • Further provided is an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC functionality when compared to Rituximab with a constant region of the same isotype.
  • Also provided is an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence TYYYGSSPYWSFDV (SEQ ID NO:23).
  • Also provided is an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SRLFDSSYGWYFDV (SEQ ID NO:24).
  • Further provided is an antibody comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype.
  • Also provided is an antibody that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SAYYGSNVWFFDV (SEQ ID NO:25).
  • Further provided are antibodies as described herein for use in the treatment of a disease in an individual.
  • Also provided are antibodies as described herein for use in the treatment of a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells.
  • Also provided are antibodies as described herein for use in the treatment of a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma.
  • Also provided are methods for the treatment of an individual that has a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells comprising administering to the individual in need thereof an antibody as described herein.
  • Also provided are methods for the treatment of an individual that has a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma comprising administering to the individual in need thereof an antibody as described herein.
  • Also provided are methods for the treatment of children with B-cell malignancies and pediatric leukemia patients that have a B-cell disease after stem cell transplantation. In pediatric patients, long-term adverse effects of rituximab are noted: permanent depletion of B cells and inability of naïve B cells to switch to memory B cells, resulting in life-long immunoglobulin depletion. The long persistence of IgG in the body is probably accountable. An IgA antibody described herein has a stronger ADCC function when compared to an IgG antibody comprising the same variable domain. This is apparent when a B-cell-specific marker is analyzed that is not subject to trogocytosis upon incubation of the cell with a CD20 antibody. An IgA antibody described herein has a short half-life when compared to an IgG antibody comprising the same variable domain. The IgA antibodies as described herein cause fewer side effects when compared to an IgG antibody with the same variable domain. In short, the IgA antibodies of the disclosure facilitate an effective hit but are also cleared fast enough to allow a good recovery of the B-cell repertoire. This is particularly helpful in preserving the B-cell repertoire following recovery from the treatment, particularly in the mentioned leukemia patients that have a B-cell disease after stem cell transplantation treated with an antibody of the disclosure and pediatric patients after B-cell depletion with an antibody of the disclosure.
  • The disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:1 and 2, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions
  • The disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:7 and 8 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS: 9 and 10 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:11 and 12 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The disclosure further provides a variable domain comprising the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:13 and 14 each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions. Further provided is an antibody comprising a variable domain as specified herein.
  • Further provided is
      • a nucleic acid molecule that codes for a heavy chain or light chain of an antibody as described herein;
      • a nucleic acid molecule that codes for the CDR3 of a heavy or light chains of an antibody as described herein;
      • a nucleic acid molecule that codes for a CDR1, CDR2 and CDR3 of the heavy or light chain of an antibody as described herein; and
      • a nucleic acid molecule that codes for a variable region of a heavy chain or of a light chain of an antibody as described herein.
  • Further provided is a cell that comprises nucleic acid that codes for an antibody as described herein
  • Further provided are means and methods for the production of an antibody as described herein.
    • BRIEF DESCRIPTION OF THE DRAWINGS
  • FIGS. 1.1 and 1.2 . Most new CD20 mAbs have unique heavy and light chain sequences. Sequences coding for the variable region of the (A) heavy chain and (B) light chain were aligned and compared with commercially available CD20 mAbs by calculating the average distance using % identity (PID). The right panel is a snapshot of the tree on the left.
  • FIGS. 2A-2C. As mouse antibodies, all new CD20 mouse IgG mAbs exhibit Type I characteristics. (FIG. 2A) PCD: EL4-CD20 cells incubated for 24 hours with 1 μg/mL CD20 mAbs in the absence or presence of cross-linking Ab. PCD determined by 7-AAD+/AnnexinV-PE+ staining (mean+SEM). (FIG. 2B) ADCC: Specific lysis of Daudi cells in a chromium release assay with PBMCs as effector cells (E:T=100:1) at 1 μg/mL CD20 mAb (mean+SEM). (FIG. 2C) CDC by new CD20 mAbs was determined at 10 and 1 μg/mL mAb in 15.5% human serum and detected by 7-AAD staining ((valuesample−meanmedium)+SEM). mIgG2a-CD20 mAbs B1, mRTX, and m7D8 in grey were taken along as controls. mlgG2c mAbs in pink and mIgG2b mAbs in blue.
  • FIGS. 3A, 3B. New mIgG2c-CD20 mAbs display varying CDC properties. Induction of complement-dependent cytotoxicity by (FIG. 3A) all new mIgG2c-CD20 mAbs on Daudi cells and (FIG. 3B) m1, m2 and m7D8 on Ramos and Raji cells. mIgG2a-CD20 mAbs B1 and m7D8 were taken along as controls. Cells were incubated with indicated mAb concentrations and 15.5% human serum. Cytotoxicity was determined by 7-AAD staining ((valuesample−meanmedium)+SEM).
  • FIGS. 4A-4C. Binding site on CD20 is different among new CD20 mAbs. (FIG. 4A) Epitope mapping using the circular peptide YNCEPANPSEKNSPSTQYCYS (SEQ ID NO:16) resulted in identification of the epitope of m1 (left) but only marginally of m2 (right). Binding of 1 μg/mL mAb to the peptide and mutants with each amino acid replaced with all other available (positional scan; excluding cysteine) was determined by ELISA. Grey line and shaded area represents WT binding A SEM. Results are displayed with Tukey-whiskers. (FIG. 4B) Rough epitope mapping with CD20 WT or CD20 mutant (KDD=T159K/N163D/N166D, A×P=A170S/P172S). HEK293F cells were transfected with plasmids and binding of mAbs (5 μg/mL) to CD20 was measured by FACS. Binding was compared to Type I CD20 mAbs (m7D8 and mRTX) and Type II mAbs (B1 and m11BS). (FIG. 4C) Determination of residues crucial for CD20 mAb binding. Data are represented as % of best binder. Coloring according to binding compared to best binder (dark grey: 0-20/=loss of binding; grey: 21-70%=intermediate binding; light grey: 71-100/full binding).
  • FIGS. 5A-5C. New CD20 mAbs with distinct kinetics. Real-time binding and dissociation curve to SKBR3-CD20 cells using Ligand Tracer Green. Association of 10 nM FITC-labeled CD20 mAbs was monitored for 1 hour before following the dissociation for 3 hours in the presence of (FIG. 5A) RPMI culture medium (non-competitive) or (FIG. 5B) 100 nM unlabeled CD20 mAbs (competitive). (FIG. 5C) Comparison of dissociation rate constants under non-competitive and competitive conditions determined by 1:1 Fitting model.
  • FIG. 6 . Chimerization can alter PCD activity. Induction of homotypic aggregation (pictures) and PCD by IgG1-CD20-1 and IgG1-CD20-2 mAbs (1 μg/mL) with or without theL11V mutation in the absence (light grey bar) or presence (dark grey bar) of cross-linking Ab (for IgG1, a-human IgG: 20 μg/mL; for B1, a-mouse IgG: 50 μg/mL). B1 and OFA as positive and negative control, respectively. Induction of cell death was determined by 7-AAD and AnnexinV-PE staining (mean+SEM).
  • FIGS. 7A, 7B. Differences in in vivo efficacy of m1gG2c-CD20 mAbs. C57BL/6 mice (4-6 mice/group) were injected intraperitoneally with 5×105 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb or PBS treatment. The anti-tumor response was evaluated 24 hours later by determining the amount of remaining tumor cells in the peritoneal lavage with TruCount tubes. (FIG. 7A) mAb titration of m1, m2 and m7DS (median+interquartile range). (FIG. 7B) Anti-tumor response by 1 μg mIgG2c mAb, represented as % of PBS (median+interquartile range). 1 μg m7D8 (mIgG2a) as positive control. 2 separate experiments as indicated by dashed line.
  • FIG. 8 . New chimeric IgG1-CD20 mAbs bind to CD20-expressing Daudi cells. Binding was determined by FACS after incubation of Daudi cells with a dilution series of mAb. RTX and OFA were included as positive controls, and Trastuzumab as isotype control.
  • FIGS. 9A-9G. Analysis of in vitro efficacy of new chimeric IgG1-CD20 mAbs. (FIG. 9A) ADCC: Specific lysis of Daudi cells in a chromium release assay with PBMCs as effector cells (E:T=50:1) over a wider mAb concentration range (mean±SEM). (FIG. 9B) CDC of new CD20 mAbs determined in 15.5% human serum and detected by 7-AAD staining ((valuesample−meanmedium)±SEM). (FIG. 9C) PCD: EL4-CD20 cells incubated for 24 hours with 1 μg/mL CD20 mAbs in the absence or presence of 20 μg/mL cross-linking Ab. PCD was determined by 7-AAD/AnnexinV-PE staining (mean+SEM). B1 (mIgG2a-CD20 mAb) is a positive control for PCD ((valuesample−meanmedium)±SEM). In all assays RTX and OFA were included as positive controls, and TRA as isotype control. PCD induction on (FIGS. 9D, 9E) Ramos cells and (FIGS. 9F, 9G) Daudi cells by IgG1-CD20-1 without or with the L11V mutation (10 μg/ml). Induction of cell death was determined by (FIGS. 9D, 9F) 7-AAD/AnnexinVPE staining and (FIGS. 9E, 9G) DiOC6/TO-PRO-3 staining (mean+SEM). 11B8 and OFA were taken along as positive and negative control, respectively. Results are representative of 3 separate assays. *p<0.05; **p<0.01; ***p<0.001, by one way ANOVA followed by Bonferroni posthoc analysis.
  • FIGS. 10A, 10B. Disappearance of CD19+ viable B cells in autologous setting. B-cell depletion by CD20 mAbs was determined by incubating mAbs for 1 hour at 37° C. with unprocessed blood from healthy donors. (FIG. 10A) FACS plots showing disappearance of viable B cells upon incubation with mAb (here IgG1-CD20-1) compared to PBS control. (FIG. 10B) B-cell depletion mediated by CD20 mAbs determined over a broader concentration range (mean+SEM). RTX and OFA were included as positive controls, and TRA as isotype control.
  • FIG. 11 . In vivo efficacy of IgG1-CD20 mAbs. C57BL/6 mice (6 mice/group) were injected intraperitoneally with 5×105 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb (10 μg) or PBS treatment. The anti-tumor response was evaluated 24 hours later by determining the amount of remaining tumor cells in the peritoneal lavage with TruCount tubes (median interquartile range).
  • FIGS. 12A-12C: Production of IgA-CD20 mAbs. (FIG. 12A) Test transfection of HEK293F cells to determine optimal ratio between HC, LC and pAdvantage coding plasmids. Concentrations of produced IgA-CD20 mAbs were measured by an IgA-specific ELISA. Large scale produced IgA-CD20 mAbs were purified by (FIG. 12B) anti-human kappa affinity chromatography, followed by (FIG. 12C) size-exclusion chromatography to separate the full size antibody from loose light chains and aggregates. Representative graphs are displayed.
  • FIG. 13 : Binding of IgA-CD20 mAbs to CD20-expressing Ramos cells. Binding was determined by FACS after incubation of Ramos cells with a dilution series of mAb.
  • FIG. 14 : Variable extent of programmed cell death induction by IgA-CD20 mAbs. EL4-CD20 cells were incubated for 24 hours with 1 μg/mL mAb in the absence and presence of cross-linking Ab (B1: 50 μg/mL; IgG1 and IgA mAbs: 20 μg/mL). The degree of cell death was determined as the sum of AnnexinV+ and AnnexinV+/7AAD+ cells (valuesample−meanmedium+SEM). B1 (mIgG2a-CD20 mAb) and RTX were taken along as positive controls and OFA as a negative control.
  • FIGS. 15A-15C: Complement-dependent cytotoxicity induced by IgA-CD20 mAbs. Target cells were incubated for indicated time with 15.5% pooled human serum and degree of CDC was determined as % 7AAD+ cells. (FIGS. 15A, 15B) Time dependency of complement induction by IgA-CD20 mAbs. Complement-mediated lysis of (FIG. 15A) Daudi and (FIG. 15B) Ramos cells incubated for 15, 60, 240, and 360 minutes in the presence of 10 μg/mL mAb. (FIG. 15C) The degree of complement-mediated lysis of Ramos cells after 15 minutes incubation with 10 μg/mL mAb was inhibited by pre-treatment of the complement source with the indicated inhibitors (heat inactivated serum; excess of eculizumab; EDTA+MgCl2). Results are shown as (valuesample−meanmedium)+SEM.
  • FIGS. 16A-16C: B-cell depletion assay in autologous setting. Whole blood leukocytes were incubated with CD20 mAbs for 3 hours at 37° C. Analysis was performed on FSC/SSC lymphocyte gate from which CD3, CD14, CD56 and CD11b positive cells were excluded. CD19 was used as B-cell marker. (FIG. 16A) Analysis of CD19 expression on CD19-cells (B cells). (FIG. 16B) Number of CD19+ events found in lymphocyte gate. (FIG. 16C) Number of CD19+ cells found in lymphocyte gate after background (no antibody) subtraction.
  • FIG. 17 . Anti-CD20 IgA mediates efficient tumor cell lysis of CD20 targets. ADCC as measured by the release of 51Cr from EL4-CD20-Luc2 cells using (Panel A) PBMC, E:T=100:1, or (Panel B) PMN, E:T=40:1, as effector cells and the indicated antibody concentrations. Anti-CD20 IgA's contain the same variable regions as rituximab.
  • FIG. 18 . Amino acid sequence of various I and VL chains. CDR sequences are underlined from left to right in the sequence CDR1, CDR2 and CDR3.
  • The positions of the CDRs in the VH were determined using the following criteria:
  • CDR-H1
  • Start—Approx residue 26 (always 4 after a CYS) [Chothia/AbM defintion]. Kabat definition starts 5 residues later. Residues before always CYS-XXX-XXX-XXX. Residues after always a TRP. Typically TRP-VAL, but also, TRP-ILE, TRP-ALA. Length 10 to 12 residues (AbM definition) Chothia definition excludes the last 4 residues.
  • CDR-H2
  • Start—always 15 residues after the end of Kabat/AbM definition of CDR-H1. Residues before typically LEU-GLU-TRP-ILE-GLY (SEQ ID NO:17), but a number of variations. Residues after LYS/ARG-LEU/ILE/VAL/PHE/THR/ALA-THR/SER/ILE/ALA. Length Kabat definition 16 to 19 residues.
  • CDR-H3
  • Start—always 33 residues after end of CDR-H2 (always 2 after a CYS). Residues before always CYS-XXX-XXX (typically CYS-ALA-ARG). Residues after always TRP-GLY-XXX-GLY (SEQ ID NO:18). Length 3 to 25(!) residues.
  • The positions of the CDRs in the VL were determined using the following criteria:
  • CDR-L1
  • Start—Approx residue 24. Residue before is always a Cys. Residue after is always a Trp. Typically TRP-TYR-GLN, but also, TRP-LEU-GLN, TRP-PHE-GLN, TRP-TYR-LEU. Length 10 to 17 residues.
  • CDR-L2
  • Start—always 16 residues after the end of L1. Residues before generally ILE-TYR, but also, VAL-TYR, ILE-LYS, ILE-PHE. Length always 7 residues.
  • CDR-L3
  • Start—always 33 residues after end of L2. Residue before is always Cys. Residues after always PHE-GLY-XXX-GLY (SEQ ID NO:19). Length 7 to 11 residues.
  • FIG. 19 . Binding of mIgG-CD20 mAbs to Daudi cells.
  • FIG. 20 . No induction of HA of EL4-CD20 cells by new CD20 mAbs (1 μg/mL) (20× magnification). Cross-linking Ab (50 μg/mL) was added as positive control conditions B1 as positive control (Type II).
  • FIGS. 21A, 21B. Epitope mapping using the linear peptide NSPSTQYGPANPSEK (SEQ ID NO:20) resulted in identification of aa contributing to binding of (FIG. 21A) m1 but not (FIG. 21B) m2. Binding of 1 μg/mL mAb to the peptide and corresponding mutants with each aa replaced with all other available (positional scan; excluding cysteine) was determined by ELISA. Grey line and shaded area=WT binding SEM; Results are displayed with Tukey-whiskers.
  • FIGS. 22A-22D. (FIGS. 22A, 22B) FACS based dissociation analysis. Daudi cells were stained with 10 μg/mL Alexa647-labeled CD20 mAb. Cells were left in (FIG. 22A) RPMI culture medium (non-competitive) or (FIG. 22B) the presence of a 10-fold excess of unlabeled mAb (100 μg/mL; competitive). At indicated time points the level of cell-bound mAb was determined. (FIG. 22C, FIG. 22D) Real-time binding and dissociation curve to SKBR3-CD20 cells using the Ligand Tracer technology. Association of 10 nM FITC-labeled CD20 mAbs was monitored for 4 hours before following the dissociation for 8 hours in the presence of (FIG. 22C) RPMI culture medium (non-competitive) or (FIG. 22D) 100 nM unlabeled CD20 mAbs of the same clone (competitive).
  • FIG. 23 . Summarizing overview of molecular determinants of existing and novel CD20 mAbs. Three distinct molecular determinants were described to determine the MoA of CD20 mAbs: 1) epitope (positions of several CD20 antibodies are indicated); 2) kinetics (koff of the CD20 antibodies were ranked from high (10−5) to low (10−6), and 3) elbow angle (commercially available CD20 mAbs (OFA, RTX and OBZ) were grouped in wide and narrow angle according to literature. The amino acid at Kabat position 11 was described to influence the angle, and based on this, the new chimeric mAbs were ordered according to the residue).
  • FIG. 24 . Amino acid sequence of suitable IgG1, IgA1 and IgA2 heavy and light chain constant regions.
  • SEQ ID NO:3 Heavy chain IgG1 constant region CH1-3 and Hinge
  • SEQ ID NO:4 Heavy chain IgA1 constant region CH1-3 and Hinge
  • SEQ ID NO:5 Heavy chain IgA2 constant region CH1-3 and Hinge
  • SEQ ID NO-6 light chain constant region
  • FIG. 25 . Internalization of CD20 from B cells at 1 ug of antibody. The number in the UMAB . . . reference in the figures refer to the variable domains of antibody m . . . with the respective numbers and the constant region as indicated.
  • FIGS. 26.1, 26.2, and 26.3 . Titration range of antibodies in CD20 internalization of B cells.
  • FIGS. 27A, 27B. Analysis of in vitro efficacy of new chimeric IgA-CD20 mAbs. (FIG. 27A) ADCC of IgA1-CD20 antibodies: Specific lysis of Daudi cells in a chromium release assay with PMNs as effector cells (E:T=40:1). (FIG. 27B) ADCC of IgA2-CD20 antibodies: Specific lysis of Daudi cells in a chromium release assay with PMNs as effector cells (E:T=40:1).
  • FIGS. 28A-28C. In vivo efficacy of IgA-CD20 mAbs. C57BL/6 mice (6 mice/group) were injected intraperitoneally with 5×10e5 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb (10 μg) or PBS treatment. The anti-tumor response was evaluated 24 hours later by determining the amount of remaining tumor cells in the peritoneal lavage with TruCount tubes (median±interquartile range)
  • FIG. 29 . Loss of CD20 expression occurs after IgG treatment, but not after IgA treatment in vivo. C57BL/6 mice (6 mice/group) were injected intraperitoneally with 5×10e5 CellTraceViolet labeled EL4-CD20 cells 16 hours prior to mAb (10 μg) or PBS treatment. Subsequently, CD20 expression was determined on these cells by flow cytometric analysis
  • FIG. 30 . CD19/CD24+ events with antibodies having a variable domain of the indicated antibody and the indicated constant regions, IgG1, IgA1 or IgA2.
    •  DETAILED DESCRIPTION
  • The disclosure is concerned with antibodies that bind CD20. The CD20 protein is also known under various other names such as Membrane Spanning 4-Domains A1; MS4A1; Membrane-Spanning 4-Domains Subfamily A Member 1; Leukocyte Surface Antigen Leu-16; CD20 Antigen; Bp35; B-Lymphocyte Cell-Surface Antigen B1; B-Lymphocyte Surface Antigen B1; CD20 Receptor, LEU-16; CVID5; MS4A2; B1; and S7. External Ids for MS4A1 are HGNC: 7315; Entrez Gene: 931; Ensembl: ENSG00000156738; OMIM: 112210 and UniProtKB: P11836.
  • Some of the names may or may not have also been used to refer to other proteins than CD20. The names and sequence identifiers are given for reference purposes only. An antibody of the disclosure hinds to CD20 as expressed on Ramos cells but also to other CD20 molecules as long as the epitope to which the antibody binds is available. Thus splicing variants or mutant CD20 molecules (if any) will also be bound by an antibody of the disclosure as long as the epitope is available. The fact that the antibody binds to CD20 means that the antibody can bind to CD20 and does not imply that the antibody is actually bound to C D20. It also does not mean that the antibody does not bind to other proteins. Such cross-reactivity is at present not known for an antibody of this disclosure, however, it is not expressly excluded that such cross-reactivity may exist.
  • An antibody (Ab), also known as an immunoglobulin (Ig), is a large, typically Y-shaped protein. An antibody interacts with various components of the immune system. Some of the interactions are mediated by its Fc region (located at the base of the “Y”), which contains site(s) involved in these interactions.
  • Antibodies are proteins belonging to the immunoglobulin superfamily. They typically have two heavy chains and two light chains. There are several different types of antibody heavy chains that define the five different types of crystallisable fragments (Fc) that may be attached to the antigen-binding fragments. The five different types of Fc regions allow antibodies to be grouped into five isotypes. An Fc region of a particular antibody isotype is able to bind to its specific Fc receptor (FcR) thus allowing the antigen-antibody complex to mediate different roles depending on which FcR it binds. The ability of an IgG antibody to bind to its corresponding FcR is modulated by the presence/absence of interaction sites and the structure of the glycan(s) (if any) present at sites within its Fc region. The ability of antibodies to bind to FcRs helps to direct the appropriate immune response for each different type of foreign object they encounter.
  • Though the general structure of all antibodies is similar, a region at the tip of the protein is extremely variable, allowing millions of antibodies with slightly different tip structures, or antigen-binding sites, to exist. This region is known as the hypervariable region. The enormous diversity of antigen binding by antibodies is largely defined by the hypervariable region and the variable domain containing the hypervariable region.
  • An antibody of the disclosure is typically a full-length antibody. The term “full length antibody” is defined as comprising an essentially complete immunoglobulin molecule, which however does not necessarily have all functions of an intact immunoglobulin. For the avoidance of doubt, a full length antibody has two heavy and two light chains. Each chain contains constant (C) and variable (V) regions. A heavy chain of a full length antibody typically comprises a CH1, a CH2, a CH3, a VH region and a hinge region. A light chain of a full length antibody typically comprises a CL region and a VL region.
  • An antibody binds to antigen via the variable region domains contained in the Fab portion. An antibody variable domain comprises a heavy chain variable region and a light chain variable region. Full length antibodies according to the disclosure encompass heavy and light chains wherein mutations may be present that provide desired characteristics. Full length antibodies should not have deletions of substantial portions of any of the regions. However, IgG molecules wherein one or several amino acid residues are substituted, inserted, deleted or a combination thereof, without essentially altering the antigen binding characteristics of the resulting antibody, are embraced within the term “full length” antibody. For instance, a “full length” antibody can have a substitution, insertion, deletion or a combination thereof, of between 1 and 10 (inclusive) amino acid residues, preferably in non-CDR regions, wherein the deleted amino acids are not essential for the binding specificity of the antibody. [00%] The epitope that is recognized by an antibody of the disclosure, and/or minor contributing amino acids therein were determined by, among others, positional amino acid scan wherein the amino acid was replaced by every other natural amino acid in a peptide containing the epitope and by a mutant screen of the CD20 protein expressed on cells. The contribution of an amino acid to the binding of an antibody to an epitope is preferably determined by comparing the binding to a peptide comprising the epitope as such and the same peptide but with an alanine at the position of the analyzed amino acid. An amino acid is relevant to the binding of the antibody to the protein when a replacement with an alanine in the protein results in a decrease of binding of the antibody to 0-70% relative to the unmodified protein. This is also referred to a reduction of binding. A decrease to 0-20% if the binding relative to the unmodified protein is regarded as loss of binding and a decrease to 21-70% relative to the unmodified protein is regarded as intermediate binding. The thus identified amino acids are considered to be a major contributor or an intermediate contributor to the binding of the antibody to the protein. A binding of 71-100% was regarded as full binding. The amino acid concerned is not regarded to contribute significantly to the binding of the antibody to the protein.
  • One of the antibodies provided by the disclosure is an antibody (A) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype. The antibody preferably further comprises a comparable or an increased CDC functionality when compared to Rituximab with a constant region of the same isotype. Preferably the ADCC functionality of the antibody is comparable or reduced when compared to Rituximab with a constant region of the same isotype. The epitope on CD20 that is bound by the antibody is “EPANpSEK” (SEQ ID NO:31). A capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide. A bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide. The antibody binds 20% or less to a CD20 protein wherein one or more of the amino acids N or S in “EPANpSEK” (SEQ ID NO:31) have been replaced by an alanine, where the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • Also provided is an antibody (A1) that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SNSYGSTYWYFDV (SEQ ID NO:21). The antibody (A1) has an increased PCD functionality when compared to Rituximab with a constant region of the same isotype. The antibody preferably further comprises a comparable or an increased CDC functionality when compared to Rituximab with a constant region of the same isotype. Preferably the ADCC functionality of the antibody is comparable or reduced when compared to Rituximab with a constant region of the same isotype. The heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNLH (SEQ ID NO:26), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SNSYGSTYWYFDV (SEQ ID NO:21), respectively. Preferably the heavy chain variable region comprises the sequence of SEQ ID NO:1, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:1 has the sequence
  • QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFT SYNLH WVKQT
    PRQGL EWIGA IYPGN GDTSY NQKFK GKATL TVDKS SSTAY
    MQLSR LTSED SAVYF CARSN SYGST YWYFD VWGTG TTVTV
    SS.
  • The light chain variable region of the antibody (A1) preferably comprises the sequence of SEQ ID NO:2, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:2 has the sequence
  • QIVLS QSPAV LFASP GEKVT MTCRA RSSVS YMDWY QQKPR
    SSPKP WIYAT SNLAS GVPAR FSGSG SGTSY SLTIS RVEAE
    DAATY YCQQW TSNPP TFGSG TKLEI KRADA APTVS IFPPS
    S.
  • The antibody A1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof. Preferably it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof. Preferably it comprises a human IgG1 constant region. In a preferred embodiment, the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2 m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region. In another preferred embodiment, the antibody comprises a murine IgG2 region, preferably a IgG2c constant region.
  • In a preferred embodiment, the antibody A is an A1 antibody.
  • The antibody A or A1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:1 and the sequence of SEQ ID NO:3, 4 or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The antibody A or A1 preferably comprises alight chain comprising the sequence of SEQ ID N0:2 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The disclosure also provides an antibody (D) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANPsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased ADCC functionality when compared to Rituximab a constant region of the same isotype. The epitope in CD20 that is bound by the antibody is “EPANPsEK” (SEQ ID NO:31). A capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide. A bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide. The antibody binds 20% or less to a CD20 protein wherein the amino acid N in “EPANpSEK” (SEQ ID NO:31) has been replaced by an alanine, whereby the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • Also provided is an antibody (B1) that can bind to an extracellular part of human CD20 expressed on Ramos cells, the antibody comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence YYYGSSYGAMDY (SEQ ID NO:22). The antibody B1 has an increased ADCC functionality when compared to Rituximab with the same isotype constant region. The heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), GIYPGNGDTSYNQKFKG (SEQ ID NO:29) and YYYGSSYGAMDY (SEQ ID NO:22), respectively.
  • Preferably, the heavy chain variable region comprises the sequence of SEQ ID NO:7, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:7 has the sequence
  • QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFT SYNMH WVKQT
    PRQGL EWIGG IYPGN GDTSY NQKFK GKATL TVDKS SSTAY
    MQLSS LTSED SAVYF CARYY YGSSY GAMDY WGQGT SVTVS
    S.
  • The light chain variable region of the antibody B1 preferably comprises the sequence of SEQ ID NO:8, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:8 has the sequence
  • QIVLS QSPAI LSASP GEKVT MTCRA SSSVS YMHWY QQKPG
    SSPKP WIYAT SNLAS GVPAR FSGSG SGTSY SLTIS RVEAA
    DAATY YCHQW TFNPP TFGGG TKLEI KRADA APTVS IFPPS
    S.
  • The antibody B1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgF, IgA heavy chain constant region or a combination thereof. Preferably, it comprises a mouse IgG2; a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof. Preferably it comprises a human IgG1 constant region. In a preferred embodiment, the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region. In another preferred embodiment, the antibody comprises a murine IgG2 region, preferably a IgG2c constant region.
  • In a preferred embodiment, the antibody B is a B1 antibody.
  • The antibody B or B1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:7 and the sequence of SEQ ID NO:3, 4 or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The antibody B or B1 preferably comprises a light chain comprising the sequence of SEQ ID NO:8 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The disclosure also provides an antibody (C) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpsEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC functionality when compared to Rituximab with a constant region of the same isotype. Preferably it comprises similar ADCC functionality as Rituximab with a constant region of the same isotype. The epitope in CD20 that is bound by the antibody is “EPANpsEK” (SEQ ID NO:31). A capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide. A bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide. The antibody binds 20/or less to a CD20 protein wherein the amino acid N in “EPANpSEK” (SEQ ID NO:31) has been replaced by an alanine, whereby the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • Also provided is an antibody (C1) that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence TYYYGSSPYWSFDV (SEQ ID NO:23). The antibody has an increased CDC functionality when compared to Rituximab with a constant region of the same isotype. Preferably it comprises a similar ADCC functionality as Rituximab with a constant region of the same isotype. The heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and TYYYGSSPYWSFDV (SEQ ID NO:23), respectively.
  • Preferably the heavy chain variable region comprises the sequence of SEQ ID NO:9, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:9 has the sequence
  • QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFA SYNMH WIKQT
    PRQGL EIWAA IYPGN GDTSY NQKFK GKATL TVDKS SSTAY
    MQLSS LTSED SAVYF CARTY YYGSS PYWSF DVWGT GTTVT
    VSS.
  • The light chain variable region of the antibody C1 preferably comprises the sequence of SEQ ID NO:10, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:10 has the sequence
  • DIQMT QSPAS LSASV GETVT VTCGA SYNIY GALNW YQRKQ
    GKSPQ LLIYG ATNLA DGMSS RFSGS GSGRQ YSLKI SSLHP
    DDVAT YYCQN VLSNP PTFGG GTKLE IKRAD AAPTV SIFPP
    SS.
  • The antibody C1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof. Preferably, it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof. Preferably it comprises a human IgG1 constant region. In a preferred embodiment, the heavy chain constant region is a human IgA 1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region. In another preferred embodiment, the antibody comprises a murine IgG2 region, preferably a IgG2b constant region.
  • In a preferred embodiment, the antibody C is a C1 antibody.
  • The antibody C or C1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:9 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The antibody C or C1 preferably comprises alight chain comprising the sequence of SEQ ID NO:10 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • Also provided is an antibody D1 that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SRLFDSSYGWYFDV (SEQ ID NO:24). The antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype. Preferably it comprises an improved ADCC functionality as Rituximab with a constant region of the same isotype. The heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SRLFDSSYGWYFDV (SEQ ID NO:24), respectively.
  • Preferably the heavy chain variable region comprises the sequence of SEQ ID NO:11, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:11 has the sequence
  • QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFP SYNMH WVKQT
    PRQGL EWIGA IYPGN GDTSY NQKFK GKASQ TVDKS SSTVY
    MQLSS LTSAD SAVYF CARSR LFDSS YGWYF DVWGT GTTVT
    VSS.
  • The light chain variable region of the antibody D1 preferably comprises the sequence of SEQ ID NO:12, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR 1, CDR2 and CDR3 regions, wherein SEQ ID NO:12 has the sequence
  • QIVLS QSPAI LSAYP GEKVT MTCRA RSSVS YIDWY QQKAG
    SSPKP WIYAT SNLAS GVPAR FSGSG SGTSY SLTIS RVEAE
    DAATY YCQQW TSNPP TFGGG TKLEI KRADA APTVS IFPPS
    S.
  • The antibody D1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof. Preferably, it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof. Preferably it comprises a human IgG1 constant region. In a preferred embodiment, the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2 m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region. In another preferred embodiment, the antibody comprises a murine IgG2 region, preferably a IgG2c constant region.
  • In a preferred embodiment, the antibody D is a D1 antibody.
  • The antibody D or D1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:11 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The antibody D or D1 preferably comprises a light chain with the sequence of SEQ ID NO:12 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The disclosure also provides an antibody (E) comprising a mouse IgG2; a human IgG1, IgA1 or IgA2 constant region and a variable domain that can bind the epitope “EPANpSEK” (SEQ ID NO:31) on human CD20 expressed on Ramos cells and which antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype. The epitope in CD20 that is bound by the antibody is “EPANpSEK” (SEQ ID NO:31). A capital letter, small case letter and bold indicates the relevance of the amino acid for binding of the antibody to the peptide. A bold letter indicates that the amino acid is a major contributor to the binding of the antibody; a small case letter indicates that the amino acid has an intermediate contribution to the binding and a capital letter in plain text indicates that the amino acid has a small or not detectable contribution to the binding of the antibody to the peptide. The antibody binds 20% or less to a CD20 protein wherein one or more of the amino acids N or S in “EPANpSEK” (SEQ ID NO:31) have been replaced by an alanine, where the binding is compared to the binding of the antibody an unmodified CD20 protein.
  • Also provided is an antibody (E1) that can bind to an extracellular part of human CD20 expressed on Ramos cells comprising a variable domain with a heavy chain variable region and a light chain variable region, wherein the heavy chain variable region comprises a CDR3 region with the sequence SAYYGSNVWFFDV (SEQ ID NO:25). The antibody has an increased CDC and/or increased ADCC functionality when compared to Rituximab with a constant region of the same isotype. The heavy chain variable region preferably comprises a CDR1, CDR2 and CDR3 region with the sequence SYNLH (SEQ ID NO:26), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SAYYGSNVWFFDV (SEQ ID NO:25), respectively.
  • Preferably the heavy chain variable region comprises the sequence of SEQ ID NO:13, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:13 has the sequence
  • QAYLQ QSGAD LVRPG ASVKM SCKAS GFTFP SYNLH WVKQT
    PRQGL EWIGA IYPGN GDTSY NQKFK GKATL TVDKS SSTAY
    MQLSS LTSED SAVYF CARSA YYGSN VWFFD VWGTG TTVTV
    SS.
  • The light chain variable region of antibody E1 preferably comprises the sequence of SEQ ID NO:14, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:14 has the sequence
  • QIVLS QSPAI LSASP GEKVT MICRA SSSVS YMDWY QQKPG
    SSPKP WIYAT SNLAS GVPTR FSGSG SGTSY SLTIS RVEAE
    DAATY YCQQW ISNPP TFGAG TKLDL KRADA APTVS IFPPS
    S.
  • The antibody E1 preferably comprises a mouse IgG2; a human IgG1, IgG2, IgG3, IgG4, IgM, IgE, IgA heavy chain constant region or a combination thereof. Preferably, it comprises a human IgG1, IgG2, IgA1 or IgA2 heavy chain constant region or a combination thereof. Preferably it comprises a human IgG1 constant region. In a preferred embodiment, the heavy chain constant region is a human IgA1 or human IgA2 heavy chain constant region, preferably a human IgA2; more preferably a human IgA2m, preferably an IgA2 m1 or IgA2m2, preferably IgA2 m1 heavy chain constant region. In another preferred embodiment, the antibody comprises a murine IgG2 region, preferably an IgG2c constant region.
  • In a preferred embodiment, the antibody E is an E1 antibody.
  • The antibody E or E1 preferably comprises a heavy chain and a light chain wherein the heavy chain comprises the sequence of SEQ ID NO:13 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The antibody E or E1 preferably comprises a light chain with the sequence of SEQ ID NO:14 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • The functionality of an antibody can be compared to Rituximab with a constant region of the same isotype. This is preferably the same constant region. Some amino acid differences may be present in the constant regions, such amino acid differences can, for instance, be introduced by somatic cell hypermutation. Between 0-5 amino acid differences are typically allowed, although more is also possible. For a comparison of functionality it is preferred that the constant regions of antibody and rituximab are the same.
  • An antibody of the disclosure can have a heavy chain variable region with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. The sequence of the CDRs is thus as indicated in the respective SEQ ID NO. It is preferred that the heavy chain variable region has 0-4 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. It is preferred that the heavy chain variable region has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. In a preferred embodiment, a heavy chain variable region in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID NO indicated.
  • An antibody of the disclosure can have a light chain variable region with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. The sequence of the CDRs is thus as indicated in the respective SEQ ID NO. It is preferred that the light chain variable region has 0-4 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicated by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. It is preferred that the light chain variable region has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID NO, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. In a preferred embodiment, a light chain variable region in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID NO indicated.
  • A heavy chain of an antibody of the disclosure can have 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. The sequence of the CDRs is thus as indicated in the respective SEQ ID NO. It is preferred that the heavy chain has 0-10, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. The heavy chain can have 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 and 15, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. It is preferred that the heavy chain has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. In a preferred embodiment, the heavy chain in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID numbers indicated.
  • Alight chain of an antibody of the disclosure can have 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. The sequence of the CDRs is thus as indicated in the respective SEQ ID NO. It is preferred that the light chain has 0-10, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. The light chain can have 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 and 15, amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. It is preferred that the light chain has 0-3, more preferably 0-2, more preferably 0-1 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions with respect to the sequence indicate by the respective SEQ ID numbers, wherein the one or more positions are not positions in the CDR1, CDR2 and CDR3 regions. In a preferred embodiment, the light chain in the antibody of the disclosure has 0 amino acid insertions, deletions, substitutions, additions or a combination thereof with respect to the sequence of the SEQ ID numbers indicated.
  • An antibody A, B, C, D, E, A1, B1, C1, D1, or E1 as described herein can be a bispecific antibody comprising one variable domain that binds an antigen other than the indicated epitope on an extracellular part of CD20 as expressed on Ramos cells. The other antigen is preferably CD19, CD64, CD32, CD16, CD3 and CD47. In a preferred embodiment, an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 comprises two variable domains that each bind the same epitope on an extracellular part of CD20 as expressed on Ramos cells, wherein the epitope is as indicated for the variable domain of antibody A, B, C, D, E, A1, B1, C1, D1, or E1. The antibody A, B, C, D, E, A1, B1, C1, D1, or E1 preferably comprises two identical variable domains. The antibody A, B, C, D, E, A1, B1, C1, D1, or E1 preferably comprises two variable domains that each bind the same epitope and comprise the same VH and the same VL sequence.
  • The disclosure further provides a CAR-T receptor comprising a variable domain of an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 as described herein. The variable domain comprises a heavy chain variable region and a variable light chain region of the respective antibodies, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions. The sequence of the respective heavy and light chain variable regions is indicated in FIG. 18 .
  • For instance, a CAR-T receptor preferably comprises a variable domain of antibody A1. In a preferred embodiment, the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:1 and 2, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • A CAR-T receptor preferably comprises a variable domain of antibody B1. In a preferred embodiment, the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:7 and 8, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • A CAR-T receptor preferably comprises a variable domain of antibody C1. In a preferred embodiment, the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:9 and 10, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • A CAR-T receptor preferably comprises a variable domain of antibody D1. In a preferred embodiment, the variable domain comprises the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:11 and 12, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • A CAR-T receptor preferably comprises a variable domain of antibody E1. In a preferred embodiment, the variable domain comprise the amino acid sequence of the heavy and light chain variable regions of SEQ ID NOS:13 and 14, each with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • Also provided is a T-cell comprising a CAR-T cell receptor of the disclosure for use in adoptive cell transfer. The use is preferably for the treatment of an individual that has a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma comprising administering to the individual in need thereof an antibody as described herein. It is also useful in the treatment of children with B-cell malignancies and pediatric leukemia patients that have a B-cell disease after stem cell transplantation.
  • A reason for changing an amino acid at a certain position can be immunogenicity.
  • Other reasons include but are not limited to improving production or homogeneity of the antibody. Antibodies of the present disclosure have variable heavy and variable light chain regions derived from a murine background. Antibodies with such variable domains can be used in humans. Presently it is preferred to de-immunize such variable domains. De-immunization typically involves the modification of the murine sequence into a more human sequence whenever possible. Typically such modifications are directed toward removing one or more T-cell epitopes or one more B-cell epitopes from the variable domain. In a preferred embodiment, the disclosure provides an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 wherein one or more (human) T-cell epitopes have been removed by replacement of at least one amino acid of the epitope with a different amino acid. Often it is sufficient to substitute the so-called “anchor” amino acid. Suitable replacement amino acids can be obtained from somatic cell hypermutants of the particular VH or VL. Replacement with an amino acid that is naturally present at that position in a human antibody is preferred. In a preferred embodiment, the disclosure provides an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 wherein one or more (human) B-cell epitopes have been removed by replacement of at least one amino acid of the epitope with a different amino acid. Often it is sufficient to substitute only one amino acid of the epitope. Suitable replacement amino acids can be obtained from somatic cell hypermutants of the particular VH or VL. Replacement with an amino acid that is naturally present at that position in a human antibody is preferred. Preferably a variable domain of the disclosure is modified with respect to one or more exterior residues. Such residues are readily encountered by the immune system and are preferably selectively replaced with human residues to provide a hybrid molecule that comprises either a weakly immunogenic or substantially non-immunogenic surface. Suitable replacement amino acids can be obtained from somatic cell hypermutants of the particular VH or VL. Replacement with an amino acid that is naturally present at that position in a human antibody is preferred. The disclosure thus further provides an antibody A, B, C, D, E, A1, R1, C1, D1, or E1 that comprises a humanized heavy chain variable region, a humanized light chain variable region or a combination thereof.
  • The disclosure further provides an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for use in the treatment of a disease in an individual. Also provided is an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for use in the treatment of a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells. Further provided is antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for use in the treatment of a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, and melanoma.
  • Also provided is the use of an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for the manufacture of a medicament for the treatment of a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells. Also provided is the use of an antibody A, B, C, D, E, A1, B1, C1, D1, or E1 for the manufacture of a medicament for the treatment of a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, and melanoma.
  • Also provided is a method for the treatment of an individual that has a disease that involves too many B cells, overactive B cells, and/or dysfunctional B cells comprising administering to the individual in need thereof an antibody A, B, C, D, E, A1, B1, C1, D1, or E1.
  • Further provided is a method for the treatment of an individual that has a CD20 positive neoplasm such as a CD20 positive B-cell lymphoma; hairy cell leukemia; B-cell chronic lymphocytic leukemia, or melanoma comprising administering to the individual in need thereof an antibody A, B, C, D, E, A1, B1, C1, D1, or E1.
  • The disclosure also provides a nucleic acid molecule that codes for a heavy chain, a light chain and/or a variable region thereof. Such a nucleic acid molecule is typically but not exclusively a ribonucleic acid (RNA) or a deoxyribonucleic acid (DNA). Alternative nucleic acids are available for a person skilled in the art, such as, for instance, peptide nucleic acids (PNA).
  • Examples of nucleic acid molecules provided by the disclosure are:
      • a nucleic acid molecule that codes for a heavy chain or light chain of an antibody as described herein;
      • a nucleic acid molecule that codes for the CDR3 of a heavy or light chains of an antibody as described herein;
      • a nucleic acid molecule that codes for the CDR1, CDR2 and CDR3 of a heavy or light chain of an antibody as described herein; and
      • a nucleic acid molecule that codes for the variable region of a heavy chain or of a light chain of an antibody as described herein.
      • a nucleic acid molecule that codes for a heavy chain variable region comprising a CDR3 region with the sequence SNSYGSTYWYFDV.
      • a nucleic acid molecule that codes for a heavy chain variable region comprising CDR1, CDR2 and CDR3 region with the sequence SYNLH(SEQ ID NO:26) AIYPGNGDTSYNQKFKG(SEQ ID NO:27) and SNSYGSTYWYFDV (SEQ ID NO:21), respectively.
      • a nucleic acid molecule that codes for a heavy chain variable region with the sequence of SEQ ID NO:1, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:1 has the sequence QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFT SYNLH WVKQT PRQGL EWIGA IYPGN GDTSY NQKFK GKATL TVDKS SSTAY MQLSR LTSED SAVYF CARSN SYGST YWYFD VWGTG TTVTV SS.
      • a nucleic acid molecule that codes for alight chain variable region with the sequence of SEQ ID NO:2, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:2 has the sequence QIVLS QSPAV LFASP GEKVT MTCRA RSSVS YMDWY QQKPR SSPKP WIYAT SNLAS GVPAR FSGSG SGTSY SLTIS RVEAE DAATY YCQQW TSNPP TFGSG TKLEI KRADA APTVS IFPPS S.
      • a nucleic acid molecule that codes for a heavy chain that comprises the sequence of SEQ ID NO:1 and the sequence of SEQ ID NO:3, SEQ ID NO:4, or SEQ ID NO:5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a light chain that comprises the sequence of SEQ ID NO-2 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a heavy chain variable region with a CDR3 region with the sequence YYYGSSYGAMDY (SEQ ID NO:22).
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), GIYPGNGDTSYNQKFKG (SEQ ID NO:29) and YYYGSSYGAMDY (SEQ ID NO:22), respectively.
      • a nucleic acid molecule that codes for a heavy chain variable region comprises the sequence of SEQ ID NO:7, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:7 has the sequence QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFT SYNMH WVKQT PRQGL EWIGG IYPGN GDTSY NQKFK GKATL TVDKS SSTAY MQLSS LTSED SAVYF CARYY YGSSY GAMDY WGQGT SVTVS S.
      • a nucleic acid molecule that codes for alight chain variable region that comprises the sequence of SEQ ID NO:8, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:8 has the sequence QIVLS QSPAI LSASP GEKVT MTCRA SSSVS YMHWY QQKPG SSPKP WIYAT SNLAS GVPAR FSGSG SGTSY SLTIS RVEAA DAATY YCHQW TFNPP TFGGG TKLEI KRADA APTVS IFPPS S.
      • a nucleic acid molecule that codes for a heavy chain that comprises the sequence of SEQ ID NO:7 and the sequence of SEQ ID NO:3, SEQ ID NO:4, or SEQ ID NO:5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR 1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a light chain comprising the sequence of SEQ ID NO:8 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises a CDR3 region with the sequence TYYYGSSPYWSFDV (SEQ ID NO:23).
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and TYYYGSSPYWSFDV (SEQ ID NO:23), respectively.
      • a nucleic acid molecule that codes for a heavy chain variable region comprises the sequence of SEQ ID NO:9, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:9 has the sequence QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFA SYNMH WIKQT PRQGL EWIAA IYPGN GDTSY NQKFK GKATL TVDKS SSTAY MQLSS LTSED SAVYF CARTY YYGSS PYWSF DVWGT GTTVT VSS.
      • a nucleic acid molecule that codes for alight chain variable region that comprises the sequence of SEQ ID NO:10, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:10 has the sequence DIQMT QSPAS LSASV GETVT VTCGA SYNIY GALNW YQRKQ GKSPQ LLIYG ATNLA DGMSS RFSGS GSGRQ YSLKI SSLHP DDVAT YYCQN VLSNP PTFGG GTKLE IKRAD AAPTV SIFPP SS.
      • a nucleic acid molecule that codes for a heavy chain that comprises the sequence of SEQ ID NO:9 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a light chain comprising the sequence of SEQ ID NO:10 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for heavy chain variable region that comprises a CDR3 region with the sequence SRLFDSSYGWYFDV (SEQ ID NO:24).
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises a CDR1, CDR2 and CDR3 region with the sequence SYNMH (SEQ ID NO:28), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SRLFDSSYGWYFDV (SEQ ID NO:24), respectively.
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises the sequence of SEQ ID NO:11, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:11 has the sequence QAYLQ QSGAE LVRPG ASVKM SCKAS GYTFP SYNMH WVKQT PRQGL EWIGA IYPGN GDTSY NQKFK GKASQ TVDKS SSTVY MQLSS LTSAD SAVYF CARSR LFDSS YGWYF DVWGT GTTVT VSS.
      • a nucleic acid molecule that codes for alight chain variable region that comprises the sequence of SEQ ID NO:12, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:12 has the sequence QIVLS QSPAI LSAYP GEKVT MTCRA RSSVS YIDWY QQKAG SSPKP WIYAT SNLAS GVPAR FSGSG SGTSY SLTIS RVEAE DAATY YCQQW TSNPP T1FGGG TKLEI KRADA APTVS IFPPS S.
      • a nucleic acid molecule that codes for a heavy chain that comprises the sequence of SEQ ID NO:11 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a light chain with the sequence of SEQ ID NO:12 and the sequence of SEQ TD NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises a CDR3 region with the sequence SAYYGSNVWFFDV (SEQ ID NO:25).
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises a CDR1, CDR2 and CDR3 region with the sequence SYNLH (SEQ ID NO:26), AIYPGNGDTSYNQKFKG (SEQ ID NO:27) and SAYYGSNVWFFDV (SEQ ID NO:25), respectively.
      • a nucleic acid molecule that codes for a heavy chain variable region that comprises the sequence of SEQ ID NO:13, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:13 has the sequence QAYLQ QSGAD LVRPG ASVKM SCKAS GFTFP SYNLH WVKQT PRQGL EWIGA IYPGN GDTSY NQKFK GKATL TVDKS SSTAY MQLSS LTSED SAVYF CARSA YYGSN VWFFD VWGTG TTVTV SS.
      • a nucleic acid molecule that codes for a light chain variable region that comprises the sequence of SEQ ID NO:14, with 0-5 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions, wherein SEQ ID NO:14 has the sequence QIVLS QSPAI LSASP GEKVT MTCRA SSSVS YMDWY QQKPG SSPKP WIYAT SNLAS GVPTR FSGSG SGTSY SLTIS RVEAE DAATY YCQQW ISNPP TFGAG TKLDL KRADA APTVS IFPPS S.
      • a nucleic acid molecule that codes for a heavy chain that comprises the sequence of SEQ ID NO:13 and the sequence of SEQ ID NO:3, 4, or 5 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
      • a nucleic acid molecule that codes for a light chain with the sequence of SEQ ID NO:14 and the sequence of SEQ ID NO:6 with 0-15 amino acid insertions, deletions, substitutions, additions or a combination thereof at one or more positions other than positions of the amino acids that constitute the CDR1, CDR2 and CDR3 regions.
  • A nucleic acid molecule as described herein is preferably used for the production of an antibody A, B, C, D, E, A1, B1, C1, D1 or E1 as described herein by a cell comprising the nucleic acid molecule. A nucleic acid molecule comprising two or more of the indicated sequences comprises such sequence in the order and linkage suitable for the production of an antibody A, B, C, D, E, A1, B1, C1, D1 or E1 as described herein by a cell comprising the nucleic acid molecule. The nucleic acid molecule preferably further comprises one or more sequences for the expression of an antibody as described. Non-limiting examples of such sequences are a promoter, a termination sequence, an enhancer, an intron etc. Such sequences are not necessarily present on the nucleic acid molecule as such sequences can be provided in cis by the integration site of the nucleic acid molecule in, for instance, a chromosome of a cell, or a vector comprising the nucleic acid molecule. Suitable integration sites in a cellular chromosome can easily be determined and targeted, for instance, by means of homologous recombination.
  • Further provided is a cell that comprises one or more nucleic acid molecules as described herein.
  • Further provided are means and methods for the production of an antibody as described herein using a nucleic acid molecule of the disclosure or a cell comprising a nucleic acid molecule of the disclosure.
  • A nucleic acid according to the disclosure, is, for instance, comprised in a cell. When the nucleic acid is expressed in the cell the translation product of the nucleic acid molecule can be incorporated into an antibody of the disclosure. The disclosure thus also provides a cell comprising a nucleic acid molecule according to the disclosure. The disclosure further provides a cell comprising a nucleic acid molecule of the disclosure and that is capable of producing an antibody of the disclosure. Further provided is a method for producing an antibody of the disclosure comprising culturing a cell comprising expressing one or more nucleic acid molecules that code for an antibody of the disclosure and harvesting the antibody from the culture medium, the cell or a combination thereof. The cell is preferably an animal cell, more preferably a mammalian cell. The cell is preferably a cell that is normally used for the production of an antibody for use in humans. Non-limiting examples of such cells are CHO, NSO and PER.C6 cells. Cells may specifically designed to suit certain purposes, for instance, most cell lines used for the production of antibodies have been adapted for growth in suspension, in high densities and other properties. For the purpose of the disclosure a suitable cell is any cell capable of comprising and preferably of producing an antibody according to the disclosure.
  • PCD function of an antibody as claimed is preferably measured in a method based on annexin V positivity in flow cytometry (as described, for instance, in Example 3).
  • ADCC function of an antibody as claimed is preferably measured in a method based on B cell depletion in blood drawn from healthy volunteers measured in flow cytometry by the decrease of CD24 positive cells, negative for myeloid markers, or a classical chromium release assay (as described, for instance, in Example 1).
  • CDC of an antibody as claimed is preferably measured in a method based on 7AAD positivity in flow cytometry (see, for instance, Example 1).
    • EXAMPLES Example 1. Novel CD20 antibodies and molecular determinants that govern functional properties of these antibodies Materials and Methods
  • Antibodies
  • CD20 mAbs were generated by cellular immunization and standard fusion of spleen cells to obtain hybridomas. Isotypes were determined by FACS (rat-anti-mIgG2a-biotin (cross-reactive with mlgG2c; BD), goat-anti-mIgG2b-Fcγ-RPE (SouthernBiotech), goat-anti-mIgG3-PerCP (Jackson)). mAbs were purified after growth in serum free medium by affinity chromatography using HiTRap rProteinA FF columns (GE Healthcare). Bound protein was eluted with 0.1 M sodium acetate pH 2.5 (Sigma Aldrich) and directly neutralized with 1 M Tris-HCl pH 8.8. Chimeric IgG1 (IgG1) mAbs were generated by cloning the variable regions (synthesized by Shinegene) into Lonza expression vectors (pEE14.4-kappaLC, pEE14.4-IgG1. The L11V mutation was introduced by site-directed mutagenesis. All IgG1 mAbs were produced by transient transfection of HEK293F cells(22) and purified by ProteinA affinity chromatography. All mAbs were dialyzed to PBS (Sigma-Aldrich) and the concentration was determined using the following formula: OD value at 280 nm/correction factor (mIgG 1.36; chIgG 1.35).
  • RTX (chIgG1; Pharmacy UMC Utrecht), OFA (human (h)IgG1; Pharmacy UMC Utrecht), mouse (m)IgG2a-CD20-7D8 (m7D8) and mIgG2a-CD20-11B8 (m11B8) (kindly provided by Genmab B V, Utrecht, The Netherlands), B1 (mIgG2a, kindly provided by Mark Cragg, Southhampton, UK) and mIgG2a-RTX (mRTX) (Invivogen) were dialyzed to PBS if needed. Abs were labeled with FTTC (Thermo Scientific) or Alexa647 (Molecular Probes) following the manufacturer's instructions.
  • Cell lines
  • SKBR3 cells (ATCC) were retrovirally transduced with human CD20 to generate SKBR3-CD20 cells. A subclone stably expressing CD20 was established by limiting dilution. EL4-CD20 cells were generated as previously described.(23) Daudi, Ramos, Raji (ATCC), and the above mentioned cells were cultured in culture medium containing RPMI-1640+HEPES+glutamine (Invitrogen) supplemented with 10% fetal calf serum (FCS), 100 U/mL penicillin and 100 μg/mL streptomycin (Life Technologies) at 37° C./5% CO2. FreeStyle™ HEK293F cells (Invitrogen) were cultured in FreeStyle™ 293 expression medium (Invitrogen) at 37° C./8% CO2 on an orbital shaker.
  • Determination of Consensus Amino Acid Sequence of Variable Regions
  • From frozen dry cell pellets, RNA was isolated and purified using a RNeasy mini kit (Qiagen). Purified RNA (2 μg) was used as templates for cDNA synthesis with a RevertAid H Minus First Strand cDNA synthesis kit (Fermentas). Next, variable light (VL) and variable heavy (VH) regions were amplified in PCR reactions (see Supplementary Materials and Methods). Gel-purified PCR products were cloned into the pCRII blunt TOPO vector (Life Technologies) and transformed into DH5a E. coli. Plasmid DNA was isolated from several clones using a QiAprep spin miniprep kit (Qiagen). Subsequently, consensus DNA sequences of VL and VH regions from each mIgG-CD20 mAb were determined by DNA sequencing (Macrogen) of several plasmid clones containing insert. Based on the sequence information of several clones of each mAb, the consensus V-region sequences were determined and subsequently the amino acid sequences were deduced.
  • Homotypic Aggregation and Cell Viability Assay
  • 0.4×105 EL4-CD20 cells together with 1 μg/mL Ab in culture medium were plated out in a 96-well plate, and incubated for 24 hours at 37° C./5% CO2. In the cross-linking conditions the following Ahs were added 30 minutes later: 20 μg/mL rabbit-F(ab′)2-anti-hIgG (Jackson) or 50 μg/mL rabbit-F(ab′)2-anti-mIgG (Jackson). Homotypic aggregation was assessed semi-quantitatively using an EVOS microscope (20× magnification). Cell viability was determined by AnnexinV-PE and 7-AAD (Pharmingen) staining, following the manufacturer's instructions
  • Human PBMC ADCC
  • ADCC assays with 51Cr-labeled target cells were performed as previously described.22,24 Briefly, PBMC isolated from healthy individuals (MiniDonorDienst UMC Utrecht) by Ficoll separation (GE Healthcare) were combined with 51Cr-labeled Daudi cells (effector-to-target ratio=100:1) and CD20 mAb in dilution. After 4 hours incubation at 37° C./5% CO2, the supernatant was harvested and counted in a liquid scintillation counter (MicroBeta; Perkin Elmer). Lysis was calculated using the following formula: % lysis=((counts of sample−minimum release)/(maximum release−minimum release))×100. Daudi cells with PBMC in culture medium or in medium supplemented with 2.5% Triton X-100 (Roche Diagnostics) were used to determine minimum and maximum release, respectively.
  • CDC Assay
  • 105 cells (Daudi, Ramos, Raji) were plated out in a 96-well plate and pre-incubated for 30 minutes at room temperature with Ab diluted in culture medium. Human serum (pooled from 8 healthy donors) as complement source (final concentration 15.5%) was added and the preparation kept for 15 minutes at 37° C./5% CO2. The degree of complement-mediated lysis was assessed by staining with 7-AAD (Pharming). Cells were measured on a FACS Canto II(BD).
  • CD20 Peptide Library Design and Screen
  • The design of the CD20 peptide library was described elsewhere.(20) Briefly, both linear and cyclic peptides, with loops of different sizes, covering the 2 extracellular loops were directly synthesized onto polypropylene plates.(25,26) Linear and discontinuous epitopes were reconstructed and for each peptide and a full amino acid scan was included (see Supplementary Materials and Methods).
  • Recognition of peptides by the CD20 mAb was assessed in a PepScan-based ELISA as previously described.(20) Briefly, 1 μg/mL mAb was added to plates with covalently linked peptides and incubated overnight at 4° C. After extensive washing, bound mAb was detected with a HRP-linked rabbit-anti-mIgG (DakoCytomation) for 1 hour at 25° C. Unbound detection Ab was washed away. Plates were developed using ABTS substrate and color development quantified using a CCD camera and an image-processing system.
  • Mutant Screen
  • HEK293F cells were transfected with vectors coding for wild-type or mutated CD20 using 293fectin (Invitrogen) following the manufacturer's instructions. One day post-transfection, cells were harvested, washed in FACS buffer and stained for 30 minutes with 5 μg/mL CD20 mAbs on ice. mAb binding was detected with a goat-anti-hIgG-APC or goat-anti-mIgG-APC Ab (Jackson). Cells were measured on a FACS Canto II (BD).
  • Ligand Tracer
  • Kinetics analysis of interactions between the mAbs and CD20 was performed by using the LigandTracer green Technology (Ridgeview Instruments AB). 106 SKBR3-CD20 cells were seeded on one side of a 10 cm culture dish (Greiner) as target cell area and association of 10 nM FITC-labeled CD20 mAb was measured. For non-competitive or competitive dissociation, labeled mAb solution was replaced by RPMI culture medium or 100 nM unlabeled mAb of the same clone, respectively. Analysis was performed using an OneToOne fitting model in TraceDrawer (Ridgeview Instruments AB).
  • EL4-CD20 Lymphoma Model
  • C57BL/6 mice were purchased from Janvier (France) or bred in the facilities. 4-6 mice/group were injected intraperitoneally (i.p.) with 5×105 CellTraceViolet (10 μM, Invitrogen)-labeled EL4-CD20 cells. After 16 hours, mice were treated with mAb or PBS (100 μL) injected i.p. A peritoneal lavage with PBS containing 5 mM EDTA was performed after 24 hours and the amount of remaining tumor cells was determined using TruCount tubes (BD). All experiments were approved by the Animal Ethical Committee of the UMC Utrecht.
    • Supplementary Materials and Methods
  • Amplification of VH and VL Regions
  • The PCR reaction contained 25 ng cDNA, 1× AccuPrime mix (Life Technologies), 25 pmol 5′ and 3′ primers (Biolegio) annealing to the cDNA encoding the signal peptide and to the constant region of the antibody, respectively, and AccuPrime™ Pfx DNA Polymerase (Life Technologies) according to manufacturer's instructions. Amplification consisted of initialization at 95° C. for 2 minutes, followed by 34 cycles of denaturation at 95° C. for 30 seconds, annealing at 55 or 60° C. for 30 seconds, and extension at 68° C. for 2.5 minutes, finally the 34 cycles were followed by an extension step at 68° C. for 7 minutes. PCR tubes were maintained at 4° C. until further processing.
  • Binding Assay
  • 105 Daudi cells were plated out in a 96-well plate and incubated with mIgG CD20 mAbs (in PBS) for 45 minutes on ice. After washing, bound CD20 mAbs were detected with goat-F(ab′)2-anti-mIgG(H+L)-APC (Southern Biotech) and subsequently measured on a FACS Canto II (BD).
  • Detailed Description of Peptide Library Used in Epitope Mapping Experiment
  • Single-domain and double-domain peptides covering the 2 extracellular CD20 loops were used to reconstruct linear and discontinuous epitopes. For each peptide a full positional aa scan (i.e., each position is replaced by all other aa) was included. The second part of the library consisted of cyclic peptides by introducing cysteine-based loops using the Pepscan technology (www.pepscan.n1). The following peptides were included: (a) all overlapping linear 34-mers covering the large loop, including a full alanine-scan of each 34-mer peptide; (b) 34 overlapping peptides from the large loop and 1 peptide from the small loop were combined in a matrix of 35×35 with each other in order to map discontinuous epitopes that are spread over two different parts; (c) all overlapping linear 15-mers covering complete CD20; (d) a full positional aa scan (excluding cysteine) of YNCEPANPSEKNSPSTQYCYS (SEQ ID NO:16); (e) one double-looped small loop covering peptide; (f) single-looped peptides of varying size covering the large loop to capture conformational epitopes that depend on a particular loop size and (g) all overlapping single-looped 15-mers covering the complete extracellular sequence of the CD20 molecule.
  • FACS-Based Dissociation
  • 105Daudi cells were incubated with 10 μg/mL Alexa647-labeled mAb for 1 hour at 37° C. and then pelleted and resuspended in either 100 μg/mL unlabeled mAb or complete RPMI culture medium. Cells were left at 37° C./5% CO2 and measured on a FACS Canto H at indicated time points to determine the level of cell-bound mAbs over time. The remaining mean fluorescence intensity (MFI) at each time point was expressed as a percentage of the initial MFI.
    • Results
  • New CD20 mAbs Exhibit Type I Characteristics
  • A panel of novel CD20 mAbs was generated and characterized in detail. After fusion of spleen B-cells of 6 immunized mice, 17 stable hybridoma clones producing mIgG2c—, mIgG2b- and mIgG3-CD20 mAbs (Table 1) were obtained. For 14 out of 17 CD20 mAbs, unique VH and VL chain sequence pairs with differing degrees of relatedness (FIGS. 1.1 and 1.2 ) were retrieved. Comparison of the new mIgG-CD20 mAbs with available Type I/II CD20 mAbs revealed that the CDR3 of the VH chain is the least conserved (27-63% identity for new mIgG-CD20 mAbs compared to RTX). For further studies, 11 CD20 mAbs were purified. Their binding was comparable to Type I CD20 mAbs m7D8 (derived from same panel as OFA with comparable properties14 but expressed as mIgG2a mAb) and mRTX (FIG. 19 ).
  • Next, their MoA was determined. Neither PCD (FIG. 2A) nor homotypic aggregation (FIG. 20 ), both strongly elicited by Type II mAbs, were induced by the new CD20 mAbs in the absence of a cross-linking Ab.
  • As a shared feature of Type I/II mAbs, specific cell lysis in an ADCC assay using Daudi cells as targets and PMBC as effectors (FIG. 2B) was determined. A comparable degree of lysis was obtained with all mIgG2c-CD20 mAbs. In contrast, m1gG2b mAbs were less effective. Remarkably, CDC activity, the MoA only elicited by Type I mAbs, differed considerably amongst the CD20 mAbs (FIG. 2C).
  • Variation of CDC Capacity of New mIgG2c-CD20 mAbs
  • For further comparisons, focus was placed on the mIgG2c mAbs as they exhibited higher levels of effector functions. CDC was analyzed over a wider concentration range on Daudi cells, a cell line sensitive for complement-mediated lysis due to high CD20 and low complement-regulatory protein (CRP) expression (FIG. 3A). m1 and m9 showed the highest CDC activity, in particular, between 0.1-3 μg/mL mAb. m10 displayed intermediate CDC potency, and m2 was the least potent. The better CDC induction by m1 compared to m2 was also detected in assays with Ramos and Raji cells, which have decreasing CD20 and increasing CRP expression (FIG. 3B).
  • New CD20 mAbs with Overlapping, but Distinct Epitopes
  • To study a possible correlation between functional properties and the epitope, m1 and m2, both mIgG2c-CD20 mAbs but highest/lowest in CDC, were subjected to a detailed epitope mapping analysis applying the PepScan-technology. Critical residues of m1 were identified to be 168EPANPSEK175 by using linear (FIG. 21A) and circular (FIG. 4A, left) peptides with a positional amino acid scan covering the larger extracellular loop. In contrast, the signal for binding of m2 to the linear (FIG. 21B) and circular (FIG. 4A, right) peptide was rather low. However, a signal decrease below the wild-type (WT) binding signal only occurred within the 168EPANPSEK175 sequence motif. This suggests that the epitope of both mAbs is located on the larger loop in the same region, however their binding characteristics are different. The data suggest that m1 binds to a linear epitope, whereas m2 might bind to a conformational epitope.
  • After identifying the epitope of two new CD20 mAbs based on peptide scanning, defining the recognition sites on properly folded CD20 for the complete mAb panel was of interest next. Therefore, a rough epitope mapping experiment with two CD20 mutants was first performed, with amino acids mutated in either the small (T159K/N163D/N166D) or larger (A170S/P172S) loop of CD20 (FIG. 4B). None of the new CD20 mAbs showed an impaired binding upon mutations in the binding region of m7D8 (T159K/N163D/N166D). Mutations in the RTX epitope region (A170S/P172S) resulted in diminished binding of all new CD20 mAbs to a different extent (0-20% of WT binding. RTX, m1, m6, m7, m17; 20-30% of WT binding: m3, m4, m5, m10; 50-80% of WT binding: m2, m9, m11).
  • To determine crucial amino acids required for binding within the larger extracellular loop, a single mutant library spanning the 168PANPSEKNSP178 sequence (FIG. 4C) was used. All 11 evaluated CD20 mAbs with unique sequence pairs showed distinct binding patterns. None of the 11 new CD20 mAbs showed loss of binding upon mutations of N176 or E174, two residues found to impact binding of the Type II mAbs B1 and m11BR, respectively. The binding of m9 remained untouched by any mutant. All other new CD20 mAbs showed an impaired binding to the CD20 molecule upon mutation of N171, as seen for mRTX. The two single mutants A170P and P172A made it possible to identify the contributing amino acids within the A170S/P172S double-mutant. The A170P mutation did not affect mAb binding. In contrast, the P172A mutant influenced binding of all new CD20 mAbs, except for m2, m9 and m11. Residue S173 was identified to be important for the binding of mRTX, m1, m4 and m10. Overall, the epitope of most new CD20 mAbs can be narrowed down to 170ANPSE174, however different amino acids are required for binding.
  • CD20 mAbs Show Variation in Binding Stability
  • A slow Ab off-rate might favor the formation of Ab-C1q complexes, the first component of the classical complement pathway. FACS-based dissociation assays hinted at unique dissociation behaviors of m1 and m2 (FIGS. 22A, 22B), suggesting a faster off/on-rate for m2. To characterize interaction kinetics and affinity of mAbs, the LigandTracer technology was used to record real-time binding and dissociation of Abs to cellular receptors. Kinetics analysis was performed for all 4 mIgG2c-CD20 mAbs under non-competitive (FIG. 5A, left) and competitive (FIG. 5A, right) conditions and detected differences in their binding behavior. All mAbs had a similar apparent affinity in the low to sub-nanomolar range (Table 3). Binding rate constants were comparable for all mAbs. The major difference in kinetics was observed in the dissociation phase. OFA, m9 and m10 dissociated very slowly, while m1, m2 and RTX had a more pronounced biphasic release pattern, meaning that one fraction of the mAbs is dissociating rapidly while another fraction is more stable bound (determined by InteractionMap analysis; data not shown). Also, except for m9, dissociation under competitive conditions is faster than under non-competitive conditions (FIG. 5C), indicating that dissociated mAbs rebind to the cell under non-competitive conditions. This occurs, for example, when other receptors are in close proximity or when Ab binding is stabilized by multiple binding, such as in Ab-(CD20)2 or CD20-Ab-C1q complexes. m2 has the largest fraction of fast releasing Abs and dissociation is strongest affected by competition. The formation of more stable complexes due to multiple interactions is substantiated by the observation that competition has a stronger impact on the release of labeled mAb when incubation times are prolonged (FIG. 22C, 22D).
  • Chimerization can Impact Functional Properties
  • During the humanization of B-Ly1 to OBZ, a leucine to valine mutation at Kabat position 11 in the VH chain was introduced. The insertion of a V11L mutation into the OBZ sequence resulted in the loss of its PCD capacity and widened its elbow angle. To evaluate whether this residue generally alters the MoA of CD20 mAbs, the reverse mutation (L11V) was introduced into the chimerized versions of m1 (IgG1-CD20-1) and m2(IgG1-CD20-2), respectively. Binding, ADCC and CDC were comparable at a saturating concentration (data not shown). Surprisingly, in a PCD assay with EL4-CD20 cells (FIG. 6 ) IgG1-CD20-1 induced PCD, a property lost upon insertion of the V11L mutation. In contrast, for IgG1-CD20-2 neither the parental nor the mutated versions induced PCD. This indicates that the MoA can change upon chimerization and that the elbow angle determining region plays a crucial role in it.
  • New CD20 mAbs Exhibit Variation in Anti-Tumor Response in Vivo
  • As mIgG2c-CD20 mAbs were the most potent in vitro, their in vivo potency in a short low tumor burden model was studied, previously established in the lab.(27) In this model CDC was shown to be the dominant effector mechanism for tumor cell eradication. Since m1 and m2 displayed the biggest differences in vitro, these two mAbs were used first to determine the effective Ab concentration (FIG. 7A). A clear concentration-dependent anti-tumor response was observed, and at 1 μg mAb a complete clearance of the tumor cells was achieved with m1 but not m2. Testing the efficacy of the remaining mIgG2c mAbs at 1 μg, m9 and m10 show that they performed comparable to m1 (FIG. 7B).
    • Discussion
  • For the treatment of B-cell malignancies, RTX (chIgG1), OFA (hIgG1) and OBZ (glycoengineered hIgG1 Fc-region for enhanced ADCC) targeting CD20 are FDA approved. In vitro they induce tumor cell killing mediated by either ADCC and CDC (Type I; RTX and OFA) or ADCC and PCD (Type II; OBZ). It is likely that certain patient groups with e.g., less beneficial FcγR polymorphisms or different types of B-cell malignancies might benefit from treatments with highly complement active or apoptosis inducing mAbs. In order to develop more effective CD20 therapeutic mAbs, further understanding of the underlying characteristics dictating the MoA of CD20 mAbs is important. Generating Type-specific CD20 mAbs remains a challenge, not only due to the low innate immunogenicity of the CD20 molecule itself, but also due to the lack of understanding, which Ab properties are relevant for function. New CD20 mAbs were raised using an efficient in-house developed immunization method and purified 11 mAbs for further characterization. Studying functional properties revealed all new CD20 mAbs to exhibit Type I characteristics as they induce CDC, but not PCD. In the panel, mIgG2b was the most frequent isotype, followed by mIgG2c and mIgG3. This is indicative for more matured Abs, since mIgG2c and mIgG2b Abs are further advanced in the class switching order of the heavy chain in C57BL/6 mice (5′ cμ-cδ-cγ3-cγ1-cγ2b-cγ2c-cε-cα3′).(28) The diversity in the variable regions indicated that affinity-matured CD20 mAbs were raised.
  • To investigate underlying properties for the MoA of the new mAbs, the epitope was determined, binding kinetics and structural properties based on a mutation at Kabat position 11. For the epitope, the C-terminal part of the larger loop of CD20 was found to be relevant for B1 and OBZ binding, suggesting that this epitope is important for the Abs' Type II features.(18,29) However, the similar location of the epitope of OBZ and B1 is most likely an incomplete explanation as B-Ly1, the parental Ab of OBZ,(30) does not display the complete Type II characteristics before humanization.(31) Additionally, the epitope of Type II mAb 11B8 is not overlapping, but comprised of amino acids located on the small and large extracellular loop, similar to 7D8 and OFA. 10 out of 11 of the mAbs bound in the same region as RTX. The data suggest that residue S173 is relevant in determining the type of epitope. Binding of m1 (linear epitope) is abrogated upon mutation of residue S173. In contrast, m2 binding (conformational epitope), is much less affected. This varying recognition results in an alteration of the binding behavior and in depth analysis suggests that it has an impact on the capacity of the mAb to create secondary interactions. Also the recently suggested V11L mutation in GA101, reversing the mAbs Type II characteristics, is not a universal explanation. Sequence comparison confirmed that Type I CD20 mAbs, but also B1 and 11B8, all carry a leucine at this position. Interestingly, the chimerized mAbs derived from m1 exhibited PCD capacity. Subsequent introduction of valine at Kabat position 1 abrogated all PCD activity. This points at an involvement of the elbow-hinge angle, however it is inconclusive as to which residues are important, as the amino acid sequences of the VH framework of m1 and m2 are identical. Kabat position 11 with B1 might be involved, as next to the elbow-hinge angle, the lack of binding to N171 was implicated as a second requirement.(12)
  • Concerning the binding kinetics, previous findings on the contribution of the off-rate of CD20 mAbs to CDC were contradictory. Mitigating the off-rate of RTX with a non-complement activating reagent increased its CDC activity.(14) Also veltuzumab, a humanized IgG1 mAb with CDRs identical to RTX except for 1 residue, displays a slower off-rate than RTX and higher CDC capacity.(32) However, no CDC enhancement was induced by RTX mutants with a slower off-rate.(33) With the panel of mIgG2c-CD20 mAbs, which varied in their ability to elicit CDC, no correlation was found between good CDC and slow dissociation as determined in LigandTracer experiments. Generally, functional characteristics could not be clearly correlated to the observed differences in the interaction kinetics or affinity and/or the epitope. Recently, it was suggested that the superior CDC activity of hIgG1 mAbs is due to Fc-Fc interactions after antigen-binding, resulting in the formation of hexamers, which eventually facilitate C1q-binding.(34) Introduction of mutations strengthening the Fc-interactions in weak complement-activating Abs resulted in enhanced CDC activity.35
  • The binding kinetics analysis revealed, however, divergent dissociation patterns and suggests that the CD20 mAbs differ in their ability to bind other molecules, leading to stabilization of Ab binding; whereas most OFA and m10 rapidly form a stable interaction, for m1, m2, and RTX a more heterogeneous pattern was observed. The release of m2 was clearly affected by self-competition. These data point to multi-site binding of the mAbs, which differs among the panel. The fraction of mAbs, which releases more quickly reduces upon increasing the incubation time. These findings raise the question of the time dependency and type of complex formation and its effect on lipid raft formation by Type I mAbs, and eventually the influence on CDC induction.
  • In vitro, the new mIgG2c-CD20 mAbs could be grouped in strong (m1 and m9), intermediate (m10) and weaker (m2) complement inducers. In vivo, m1, m9 and m10 performed comparable, whereas m2 was less effective. This suggests that differences detected in in vitro CDC assays were not noticeable with the used model. This is likely a model dependent effect, and different when other in vivo models are used. Characteristics that govern the functional properties of CD20 mAbs are indicated in FIG. 23 .
    • Example 2 Material and Methods
  • Antibodies
  • Rituximab (RTX, chimeric (ch)IgG1), Ofatumumab (OFA, human (h)IgG1), and Trastuzumab (TRA, humanized IgG1) were obtained from the Pharmacy of the UMC Utrecht.
  • The generation of the new chimeric IgG1 mAbs IgG1-CD20-1 and IgG1-CD20-2 was described in Chapter 7. IgG1-CD20-7, IgG1-CD20-9, and IgG1-CD20-10 were made by U-Protein (Utrecht), who produced the mAbs in HEK293T cells. All mAbs were dialyzed to 1× PBS (Sigma-Aldrich) and the concentration was determined using the following formula:
  • OD ⁢ value ⁢ at ⁢ 280 ⁢ nm correction ⁢ factor ⁢ ( chlgG 1.35 ) ? ? indicates text missing or illegible when filed
  • Cell Lines
  • Daudi cells (ATCC) were cultured in RPMI culture medium containing RPMI-1640+HEPES+glutamine (Invitrogen) supplemented with 10% fetal calf serum (FCS) and 100 U/mL penicillin and 100 μg/mL streptomycin (1× P/S; Life Technologies) at 37° C./5% CO2. EL4-CD20 cells were generated as previously described(23) and cultured in RPMI culture medium.
  • Binding Assay
  • 105 Daudi cells were plated out in a 96-well plate and incubated with IgG1-CD20 mAbs (in PBS) for 45 minutes on ice. After washing, bound CD20 mAbs were detected with goat-F(ab)2-anti-hIgG-RPE (Southern Biotech) and subsequently measured on a FACS Canto II (BD).
  • Human PBMC ADCC
  • ADCC assays with 51Cr-labeled target cells were performed as previously described.(22) PBMCs were isolated from healthy individuals (MiniDonorDienst UMC Utrecht) by Ficoll separation (GE Healthcare; Sigma-Aldrich). 15Cr-labeled Daudi cells were combined with PBMCs (effector-to-target ratio=50:1) and CD20 mAb in dilution. After 4 hours incubation at 37° C./5% CO2, the supernatant was harvested and counted in a liquid scintillation counter (MicroBeta; Perkin Elmer). Lysis was calculated using the following formula:
  • % ⁢ lysis = counts sample - counts minimal ⁢ release counts maximum ⁢ release - counts minimal ⁢ release × 100.
  • Daudi cells with effector cells in RPMI culture medium or in medium supplemented with 2.5% Triton X-100 (Roche Diagnostics) were used to determine minimal and maximum release, respectively.
  • CDC Assay
  • 105 cells Daudi cells were plated out in a 96-well plate and pre-incubated for 30 minutes at room temperature with mAbs diluted in RPMI culture medium. Human serum (pooled from 8 healthy donors) as complement source (final concentration 15.5%) was added and the preparation kept for the 15 minutes at 37° C./5% CO2. The degree of complement-mediated lysis was assessed by staining dead cells with 7-AAD (BD Pharmingen). Cells were measured on a FACS Canto II (BD).
  • Cell Viability Assay
  • 4×104 EL4-CD20 cells together with 1 μg/mL Ab in RPMI culture medium were plated out in a 96-well plate, and incubated for 24 hours at 37° C./5% CO2. In the cross-linking condition 20 μg/mL rabbit-F(ab′)2-anti-hIgG (Jackson ImmunoResearch) was added 30 minutes after start of incubation. Cell viability was determined by AnnexinV-PE and 7-AAD (BD Pharmingen) staining, following the manufacturer's instructions.
  • B-Cell Depletion Assay
  • Blood from healthy donors was collected in Hirudin blood tubes and stored on ice until use. mAbs were diluted in RPMI-1640+HEPES+glutamine (Invitrogen) and unprocessed blood was added. After incubation of the plates for 60 minutes at 37° C./5% C02 samples were kept on ice for all further steps. Leukocytes and CD19+ cells were stained by adding mouse-anti-hCD45-PO (Life Technologies) and mouse-anti-hCD19-APC (Biolegend) for 30 minutes. Subsequent lysis of erythrocytes with 1× BD Pharm Lyse Lysing buffer (BD) supplemented with 5 mM EDTA pH 8 (Sigma-Aldrich), 7-AAD (BD Pharmingen) and Cyto/Cal Multifluor Plus Violet Flow Cytometer Alignment Beads (Thermo Scientific) was followed by measurement on a FACS Canto II (BD).
  • EL4-CD20 Lymphoma Model
  • C57BL/6 mice were purchased from Janvier (Le Genest Saint Isle, France). 6 mice/group were injected intraperitoneally (i.p.) with 5×105 CellTraceViolet (10 μM, Invitrogen)-labeled EL4-CD20 cells. After 16 hours, mice were treated with 10 μg mAb or PBS (100 μL) injected i.p. A peritoneal lavage with 1× PBS containing 5 mM EDTA was performed after 24 hours. The amount of remaining tumor cells was determined using TruCount tubes (BD). All experiments were approved by the Animal Ethical Committee of the UMC Utrecht.
    • Results
  • From the panel of previously characterized mIgG CD20 mAbs, 5 promising candidates for chimerization were selected. Four of these were mIgG2c mAbs (m1, m2, m9, and m10; see Example 1) which exhibited a diverse functional pattern in vitro. Among the mIgG2b mAbs, m7 displayed the highest complement-dependent cytotoxicity. After cloning the variable regions into human IgG1 constant region and human kappa light chain (LC) expression vectors, the mAbs in either HEK293F or HEK293T cells were produced. Subsequently, purified chIgG1 mAbs were subjected to a preliminary in vitro characterization.
  • First, the antigen-binding capacity of all chimerized CD20 mAbs were tested. They specifically bound to CD20 positive Daudi cells (FIG. 8 ). Their binding pattern was comparable to the commercially available CD20 mAbs RTX (chIgG1) and OFA (hIgG1).
  • Next, their potential to eradicate tumor cells in two different assays was assessed. First, tumor cell killing was measured in a classical chromium-release ADCC assay, by incubating 51Cr-labeled Daudi cells with mAb and PBMCs (effector to target ratio=50:1) (FIG. 9A). With the chimeric IgG1-CD20 mAbs clearer differences in their ADCC capacity could be seen, compared to their mouse versions (Example 1). The percentage of maximal lysis at 1 μg/mL mAb ranged between 38% (IgG1-CD20-1) and 49% (IgG1-CD20-10). Though maximal lysis was slightly higher for the commercial mAbs RTX and OFA, at lower concentrations, IgG1-CD20-2, IgG1-CD20-9, and IgG1-CD20-10 performed better than RTX.
  • Tumor cell killing by activation of the complement system is the second effector mechanism commonly induced by IgG1-CD20 mAbs. The chIgG1-CD20 mAbs showed a concentration dependent tumor cell lysis (FIG. 9B). All mAbs induced a higher degree of CDC compared to RTX. IgG1-CD20-2 remained the least potent one. IgG1-CD20-1 and IgG1-CD2-10 performed similar, and IgG1-CD20-7 even better than OFA at lower concentrations.
  • The last mechanism of action described to be induced by CD20 mAbs, is tumor cell death by programmed cell death (PCD). This property is strongly induced by so called Type II CD20 mAbs like Obinutuzumab (OBZ)(12) and B1 (mIgG2a CD20 mAb).(13) RTX was shown to kill tumor cells to a lower extent via the same caspase-independent pathway.(13) None of the parental mouse CD20 mAbs induced neither homotypic aggregation, as sign for cell death induction, nor an increase in 7-AAD and AnnexinV positivity. As described in Example 1, IgG1-CD20-1 induced PCD of EL4-CD20 cells. Here, the full IgG1-CD20 mAb panel was compared, however, for the other 4 CD20 mAbs, chimerization did not change these characteristics (FIG. 9C).
  • Finally, the degree of B-cell depletion in an autologous whole blood assay was assessed. An increase of 7AAD+ CD19+ B cells upon incubation with mAb at any concentration was not observed, the focus was only on the number of viable CD19+ B cells (FIG. 10A). A mAb concentration dependent decline of viable CD19+ B cells (FIG. 10B) was detected. RTX as the weakest CDC inducer performed the worst. No clear differences could be observed between the new IgG1-CD20 mAbs.
  • Eventually, using the previously established EL4-CD20 low tumor burden model, it was determined at a fully saturating concentration of 10 μg mAb the efficacy of the chimeric IgG1-CD20 mAbs. No major differences were detectable, but all mAbs showed a potent induction of tumor cell killing in vivo (FIG. 11 ).
    • Discussion
  • Starting with mouse sequences, an important step before humanization is to test chimeric mAbs for their therapeutic potential. Five new chimeric IgG1-CD20 mAbs were generated, and they all induced tumor cell killing in vitro and in vivo. Differences in their ADCC and CDC activity however, did not translate into a better anti-tumor response in vivo.
  • OBZ, a potent ADCC and PCD inducer, was shown to prolong survival of SCID mice more efficiently than RTX in a NHL xenograft model.(12) However, the individual contribution of ADCC or PCD to the efficacy has not been evaluated yet.
  • The potential of CD20 mAbs has been studied extensively in whole blood B-cell depletion assays. Commonly, 4 hours to 24 hours incubation times were used.(12, 50, 51) It was shown that OBZ exhibits superior and faster killing of B cells in an autologous setting of healthy but also patient donor blood compared to RTX. However, in those assays all effector mechanisms are likely to contribute. The mAbs was incubated for 1 hour with unprocessed blood. This set-up is beneficial for the evaluation of complement-mediated rather than effector cell-mediated tumor cell killing. CDC is quickly induced, whereas NK-cell-mediated tumor cell eradication requires longer incubation times. This possibly explains the poor results obtained with RTX, the weakest complement activator. The effectiveness of the new CD20 mAbs in the B-cell depletion assay correlated with obtained CDC results. Next to donor variability, a decrease of CD19 expression within the lymphocyte gate was detected, indicating an influence of CD20 mAb treatment on CD19. It was previously shown that RTX treatment induces CD19 shaving or trogocytosis, a neutrophil- and monocyte/macrophage-mediated mechanism.(9-11) As this seems to be a very fast effect, alternative strategies to determine the B-cell depletion potential of CD20 mAbs in an autologous setting are being investigated. Here, CD24 as a secondary B-cell marker is going to be explored. The findings demonstrate that functional characteristics displayed by mouse IgG mAbs are not predictive for a chimer (Table 2). The antibody GA101 (obinutuzumab) does not have significant complement activity see Herter et al (2013) Mol Cancer Ther. 12(10):2031-42. doi: 10.1158/1535-7163.MCT-12-1182.
    • Example 3
  • IgG1-CD20 monoclonal antibodies (mAbs) like rituximab, ofatumumab and obinutuzumab are used in the clinics to treat patients diagnosed with different kinds of B-cell malignancies. For IgG1-CD20 mAbs various mechanisms-of-action are known to contribute to the eradication of tumor cells:56-61) (a) antibody-dependent cytotoxicity and phagocytosis (ADCC/ADCP) mediated by the engagement of Fc gamma receptors (FcγR) on predominantly natural killer cells and monocytes/macrophages; (b) activation of the classical complement pathway by binding C1q, resulting in tumor cell lysis by CDC; (c) induction of PCD upon direct binding to CD20 molecules. Additionally, it was suggested that the treatment with mAbs can induce an adaptive cellular immune response. Findings by Abès and colleagues showed that an Fc-mediated response results in a long-lasting protection of immunocompetent mice after tumor re-challenge.(62) The induction of cytotoxic T-cells might be initiated by dendritic cells, which cross-present tumor-derived peptides after phagocytosis of Ab-opsonized target cells.(63,64) This long-term anti-tumor immunity has not yet been shown in patients, but might explain why for some patients a durable tumor regression can be achieved with CD20 mAbs.
  • The engagement of effector cells required for the induction of an anti-tumor response by IgG1-CD20 mAbs relies on the interaction with FcγR. However, single nucleotide polymorphisms (SNPs) within FcγIIa and FcγRIIIa have been associated with better or worse treatment outcomes.(65-68) Furthermore, due to unknown reasons not all patients respond to IgG1-CD20 mAb therapy. Patients that relapse or develop resistance after rituximab treatment have also been reported.(69-73) Thus, alternative treatment options are required to overcome these limitations. One possibility is the use of a different Ab isotype, namely IgA. IgA is the second most prominent antibody in blood, after IgG, and the predominant Ab at the mucosa. The monomeric version of IgA is mostly found in serum, whereas polymeric IgA is produced at mucosal sites. The 2 Ab subclasses, IgA1 and IgA2, differ structurally in their hinge regions, which is 13 amino acids longer for IgA1 than for IgA2. This might enable an improved reach for antigens that are distant, but at the same time makes it more prone to degradation by proteases.(36) Furthermore, the hinge region of IgA1 mAbs carries several O-linked glycosylation sites, which are absent in IgA2 mAbs. IgA2 exists as 3 allotypes; IgA2(m1) has 2 additional N-linked glycosylation sites compared with IgA1, and IgA2(m2) and IgA2(n), which have 3 additional N-linked glycosylation sites. Contrary to IgG, IgA is a weak activator of the classical complement pathway as it cannot bind C1q.(37) However, IgA mAb have been shown to activate the complement system through the lectin pathway, as the carbohydrate recognition domain (CRD) of mannan-binding lectin (MBL) can bind to IgA.(38)
  • IgA engages immune effector cells by binding to the FcαRI (CD89), which is expressed on cells of the myeloid lineage: neutrophils, monocytes, different macrophage populations and eosinophils.(39) Expression on in vitro generated dendritic cells was shown,(23, 24) but remains controversial. Neutrophils express high levels of the FcαRI, while macrophages have lower expression.(42) In ADCC assays with IgA mAbs targeting solid tumor targets, neutrophils have been shown to efficiently eradicate tumor cells.(43-46) In contrast, IgG1 mAbs were less able to engage this effector cell population. Monocyte/macrophage-mediated tumor cell killing was shown to be comparable between IgA and IgG mAbs(44) Next to the activating FcγRIIIa, macrophages also express the inhibitory FcγRIIb. It has been shown that the presence of FcγRIIb reduces mAb activity.(47) For IgA, no inhibitory receptor has been described yet.
  • The knowledge on IgA mAb targeting tumor-associated antigens has increased significantly over the last few years. Several bottlenecks that were faced a few years ago are now overcome, and are currently able to produce and purify sufficient amounts of monomeric IgA mAbs for in vitro and in vivo testing. Mice lack a receptor for IgA, therefore the generation of human FcαRI transgenic now allows in vivo testing.(48) Boross and colleagues eventually showed in an immunocompetent tumor model the great potential of IgA mAbs in a therapeutic setting.(44) The majority of IgA mAbs studied so far are targeting Her2 or EGFR, antigens expressed on solid tumors. Only one study has looked at the potential of monomeric IgA-CD20 mAbs.(49) Complement-mediated tumor cell killing was demonstrated to rely on weak indirect activation of the classical pathway and more pronounced direct activation of the alternative pathway. With a passive immunization strategy in FcαRI transgenic mice, a good protection against tumor development with monomeric IgA2-CD20 mAbs was achieved. However, therapeutic in vivo testing for IgA-CD20 mAbs has not yet been performed. Further, a direct comparison of IgA1 and IgA2 mAbs, in particular, with respect to their complement activation properties is lacking. Therefore, the goal of the current study was to generate several IgA-CD20 mAbs of the different subclasses and characterize them. Described here is the preliminary in vitro characterization of unique IgA1- and IgA2-CD20 mAbs. The previously generated mIgG2c-CD20 mAbs m1 and m2 (Example 1) were selected to be produced as IgA1 and IgA2 variants. Their preliminary in vitro characterization revealed promising potential.
    • Material and Methods
  • Antibodies
  • The following antibodies were used in experiments as positive or negative controls: rituximab (RTX; Pharmacy UMC Utrecht), anti-hCD20-hIgA2 (IgA2-RTX; InvivoGen), anti-hCD20-hIgA1 (IgA1-RTX; InvivoGen); IgA1- and IgA2(m1)-Her2 (own production), ofatumumab (OFA, Pharmacy UMC Utrecht), B1 (mIgG2a-CD20 mAbs, kindly provided by Mark Cragg, University Southhampton, UK), and trastuzumab (TRA, Pharmacy UMC Utrecht).
    • Cell Lines
  • The Burkitt lymphoma cell lines Ramos and Raji (ATCC) were maintained in RPMI culture medium containing RPMI-1640+HEPES+glutamine (Invitrogen) supplemented with 10% FCS and 1× P/S at 37° C./5% CO2. EL4-CD20 cells were generated as previously described(23) and cultured in RPMI culture medium.
  • Production of IgA-CD20 mAbs
  • The variable heavy and light chain (HC and LC) sequences (synthesized by ShineGene) were flanked by the HindIII and NotI restriction sites. The variable regions were cloned into the Lonza vectors pEE14.4-kappaLC, pEE14.4-IgA1, and pEE14.4-IgA2(m1).
  • For transient antibody production, the HEK FreeStyle™ 293F Cell (Invitrogen) system was used as previously described.(22) Briefly, HEK293F cells were transfected with LC, HC and pAdVAntage™ Vector (Promega) DNA diluted in Opti-MEM (Life Technologies) together with 293fectin™ Transfection Reagent (Life Technologies). After 4 hours 1× P/S (Gibco) was added. Supernatant was harvested 4 days post transfection, filtered and stored until purification at 4° C.
  • All column purification steps were performed using the ÄKTAPrime plus system (GE Healthcare). The antibody containing supernatant was diluted 1:1 with the binding buffer (1× PBS; Sigma-Aldrich) and IgA mAbs were purified using a 5 mL HiTrap KappaSelect column (GE-Healthcare). Bound protein was eluted from the column with 0.1 M Glycine, pH 2.5. Fractions were collected, directly neutralized with 1 M Tris, pH 8.8 and pooled based on protein concentration determined by A280 absorption measured on a Nanodrop. Protein containing fractions were subjected to size-exclusion chromathography (SEC) using a HiPrep 26/60 Sephacryl S-300 High Resolution column (GE Healthcare). Fractions containing the monomeric IgA mAbs were collected, pooled, and concentrated using VivaSpin concentration columns (100 000 MWCO; Sartorius). End concentrations of the IgA mAbs were determined by Nanodrop using the following formula:
  • OD ⁢ value ⁢ at ⁢ 2 ⁢ 80 ⁢ nm correction ⁢ factor ⁢ ( monomeric ⁢ IgA ? ) . ? indicates text missing or illegible when filed
  • IgG and IgA ELISA
  • A 96-well plate (NUNC maxisorp) was coated with goat-anti-huKappa (Southern Biotech) diluted in 1× PBS (Sigma-Aldrich) at 4° C. overnight. After blocking with 1% BSA/0.05% Tween-PBS and washing with 0.05% Tween-PBS, samples were added and incubated for 90 minutes at room temperature. Samples and standards were diluted in 1% BSA/0.05% Tween-PBS. Purified huIgA (Bethyl Lab) was used as a standard for IgA mAbs. Washed plates were incubated with goat-anti-human IgA-HRP (Southern Biotech) diluted in 0.05% Tween-PBS as secondary antibody for 1 hour at room temperature. Round antibodies were detected with ABTS (Roche) and subsequent measurement at 405 nm with a Multiscan RC (Thermolab systems).
  • CD20 Binding Assay
  • 105 Ramos cells were plated out in a 96-wells plate and incubated with mAb diluted in 1× PBS for 45 minutes on ice. After extensive washing, bound Abs were detected by incubating the cells for 45 minutes on ice with goat-F(ab′)2-anti-humanIgA-RPE (Jackson ImmunoResearch). Cells were fixed with 1% paraformaldehyde before measuring them on the FACS Canto II (BD).
  • CDC Assay
  • 105 Daudi or Ramos cells were opsonized with mAbs diluted in RPMI culture medium for 30 minutes at room temperature. Next, 15.5% normal human serum (NHS) pooled from 8 donors was added and the mixture incubated for different time spans (15, 60, 240, and 360 min) at 37° C. Serum for blocking experiments was treated before addition to the cells by heat-inactivation (30 minutes at 56° C.), pre-incubation with 10 mM EGTA+2 mM MgCl2, or addition of eculizumab (anti-C5 mAb) at a mAb:C5 molar ratio of 5:1 for 15 minutes at room temperature. Cells were washed with 1× PBS and dead cells stained with 7-AAD (BD Pharmingen) for 15 minutes at room temperature. Samples were measured on a FACS Canto II(BD) and complement-dependent tumor cell lysis was determined as the percentage of 7-AAD positive cells.
  • Cell Death Induction Assay
  • 0.4×105 EL4-CD20 cells were incubated with 1 μg/mL mAb for 24 hours at 37° C. Cross-linking Abs (20 μg/mL rabbit F(ab′)2-anti-hIgG; 50 μg/mL rabbit F(ab′)2-anti-mIgG, and 20 μg/mL goat F(ab′)2-anti-human serum IgA; Jackson) were added 30 minutes after incubation of the cells with the CD20 mAbs. Samples were collected, washed with Annexin V binding buffer and incubated with a mix of AnnexinV-APC and 7-AAD (both BD Pharmingen) for 15 minutes at room temperature. Cells were measured on a FACS Canto H and the extent of programmed cell death was determined as % AnnexinV+7-AAD++% AnnexinV+ cells.
  • B-Cell Depletion Assay
  • All leukocytes were isolated from healthy donor blood collected in Heparine tubes by Histopaque-ficoll density gradient and subsequent lysis of residual erythrocytes using eryhtrocyte lysis buffer (155 Mm ammonium chloride, 0.1 mM EDTA and 10 mM potassiumbicarbonate, pH 7.4). Isolated leukocytes were combined with antibody dilutions in a 96-well plate at 0.2×106 leukocytes/well and incubated for 3 hours at 37° C./5% CO2. The supernatant was removed after centrifugation, cells washed with ice-cold PBS/0.1% BSA (FACS buffer) and stained with an antibody mix containing mouse-anti-human CD19-APC (Biolegend), mouse-anti-human CD11b-PE (BD Pharmingen), mouse-anti-human CD14-V500 (BD Pharmingen), mouse-anti-human CD56-AlexaFluor488 (clone B159, BD Pharmingen), and mouse-anti-human CD3-PerCp (Biolegend) for 30 minutes on ice. After washing, cells were resuspended in FACS buffer containing Cyto/Cal Multifluor Plus Violet Flow Cytometer Alignment Beads (Thermo Scientific), and flow cytometry was performed using a BD FACS Canto™ II.
  • Human PMN ADCC
  • ADCC assays with 51Cr-labeled target cells were performed as previously described. Briefly, PMNs were isolated from healthy individuals (MiniDonorDienst UMC Utrecht) by Ficoll/Histopaque separation (GE Healthcare; Sigma-Aldrich). 51Cr-labeled Daudi cells were combined with PMNs(effector-to-target ratio=40:1) and CD20 mAb in dilution. After 4 hours incubation at 37° C./5% CO2, the supernatant was harvested and counted in a liquid scintillation counter (MicroBeta; Perkin Elmer). Lysis was calculated using the following formula:
  • % ⁢ lysis = counts sample - counts minimal ⁢ release counts maximum ⁢ release - counts minimal ⁢ release × 100.
  • Daudi cells with effector cells in RPMI culture medium or in medium supplemented with 2.5% Triton X-100 (Roche Diagnostics) were used to determine minimal and maximum release, respectively.
    • Results
  • Antibody Production and Purification
  • The IgA1 and IgA2 mAbs were produced by transfection of HEK293F cells. First, the optimal ratio between heavy chain, light chain and pAdvantage DNA was determined in a small scale test transfection. For all mAbs, a 1:2:1 ratio to result in the highest production (FIG. 12A) was found. The new mAbs were subsequently produced by a linear upscaling approach. The full-size mAbs were isolated by a two-step purification protocol, including 1) anti-kappa purification (FIG. 12B) and 2) size-exclusion chromatography (SEC) (FIG. 12C). Whereas the kappa purification peaks look the same for both subclasses, a different pattern could be observed during the SEC. Next to the full-size Abs, IgA1 samples contained higher levels of loose kappa light chains (FIG. 12C left). In contrast, IgA2 samples contained more Ab conjugates (shorter retention time; FIG. 12C right). The yields of full-size mAbs obtained after SEC were comparable between both subclasses. Purity and integrity of the purified IgA mAbs was assessed by SDS-PAGE (data not shown).
  • Functional Characterization
  • First, the ability of the antibodies to bind to CD20-expressing Ramos cells (FIG. 13 ) was assessed. Binding capacity was in the same range for all IgA2-CD20 mAbs. However, IgA1 mAbs had a better binding capacity compared to the IgA2 mAbs.
  • Next, the functionality of the newly synthesized antibodies was tested. A subset of IgG-CD20 mAbs, known as Type II CD20 mAbs, induces PCD upon binding to their target. The IgA mAbs was subjected to a cell death induction assay. The incubation of EL4-CD20 tumor cells with the mAbs for 24 hours led to a marginal increase of PCD by the new IgA-CD20 mAbs (FIG. 14 ). This was slightly more pronounced for IgA1 than IgA2 mAbs.
  • Subsequently, the ability of IgG1- and IgA-CD20 mAbs was compared to induce CDC. Complement-mediated lysis of Daudi cells was observed already after 15 minutes with IgG1-CD20 mAbs, but not with IgA-CD20 mAbs (FIG. 15A). Minor CDC induction by IgA-CD20-1 mAbs was seen after 60 minutes incubation with complement active serum, which increased with longer incubation times. Unexpectedly, Ramos cells, which express less CD20, but higher levels of CD46 and CD59 than Daudi cells, were more susceptible to CDC (FIG. 15B). Furthermore, IgA1-CD20 complement-mediated lysis was delayed but reached a comparable level as IgA2-CD20 mAbs after 240 minutes. To confirm that the IgA-CD20-1 induced lysis was mediated by complement activation, CDC assays were performed in the presence of different complement inhibitors (FIG. 15C). The lysis induced by IgA-CD20-1 mAbs was abolished when heat-inactivated serum and serum pre-treated with eculizumab (anti-C5 mAb), was used. To determine if the alternative pathway is engaged by IgA mAbs, EGTA+MgC2 was used to inhibit the classical and lectin pathway. Lysis was reduced to background levels not only for IgG1, but also by IgA-CD20-1 mAbs.
  • After determining the ability of the new IgA-CD20 mAbs to induce PMN-mediated tumor cell lysis in a chromium release assay, the potential of the IgA-CD20 mAbs to deplete human B cells was then analyzed. Incubation of leukocytes from healthy donors with the mAbs resulted in a concentration-dependent decline of CD19+ events (FIG. 16A). This effect was comparable between RTX and the IgA-CD20 mAbs. The number of CD19+ events (FIG. 16B) steadily decreased for all IgA-CD20 mAbs and reached a plateau between 0.05 and 0.5 μg/mL mAbs. In contrast, the number of CD19+ events upon RTX incubation reached a minimum at 0.05 μg/mL, but increased at higher concentrations again. For both isotypes, the number of CD19′ events reached an optimum between 0.05 to 0.5 μg/mL (FIG. 16C).
    • Discussion
  • At the moment, all CD20 targeting mAbs on the market are of the IgG1 isotype. The varying response to the treatment stresses the need to develop alternative therapies. In the recent years, researchers have investigated the anti-cancer potential of IgA mAbs targeting, in particular, solid tumor targets like Her2 and EGFR.(43-46, 74) Here, the comparison of IgA1-CD20 and IgA2(m1)-CD20 mAbs is described, which have unique variable domain sequences of two previously selected mouse mAbs. Functional characterization of the parental mouse mAbs m1 and m2 showed distinct behavior in their complement-mediated tumor cell lysis capacity, binding kinetics and epitope recognition (Example 1).
  • Fab- and Fc-mediated mechanisms were studied leading to the eradication of tumor cells as described for IgG1 mAbs. Some IgG1-CD20 mAbs (e.g., Obinutuzumab and B1) elicit tumor cell killing upon binding to CD20 (Fab-mediated effect). PCD with IgG1-CD20-1 was observed, but not IgG1-CD20-2. In contrast, both IgA-CD20-1 and IgA-CD20-2 induced PCD, albeit at a low level, indicating that this mechanism-of-action for IgA mAbs is independent of the epitope. To strengthen this hypothesis, other known antibodies that differ in their PCD capacity as IgG1 and target different epitopes (e.g., RTX and Obinutuzumab) would need to be compared as IgA variants.
  • CDC induced by IgG1 is an efficient Fc-mediated mechanism to lyse tumor cells. IgG1-CD20 mAbs activate the classical complement pathway by binding C1q. However, the activation of this pathway is unlikely for IgA mAbs as they lack the C1q recognition site.(37) In literature it was described that IgA Abs isolated from human serum bind MBL.(38) This resulted in C3 deposition, indicating the engagement of the lectin pathway. Still, Pascal and colleagues showed that IgA2-CD20 mAbs lyse a subset of CD20+ tumor cell lines by directly activating the alternative and indirectly engaging the classical pathway.(39) With the data, the involvement of CDC in tumor cell killing by IgA mAbs was confirmed. However, the results exclude activation of the alternative pathway. To further dissect the contribution of the different complement pathways, additional experiments have to be performed with specific inhibitors. For example, C1q depleted serum can be used to block the classical pathway, Factor B depleted serum for inhibition of the alternative pathway, and MASP-1 or MASP-2-specific inhibitors to block the lectin pathway.(75, 76) For the first time, both subclasses next to each other were compared and it showed that IgA2 mAbs are faster at inducing CDC than IgA1 mAbs. This discrepancy might be a consequence of the differential glycosylation pattern of the heavy chain of IgA1 (2 N-linked glycans) and IgA2(m1)(4 N-linked glycans), resulting in a better activation of the lectin pathway by IgA2.
  • Properties like target antigen expression level, expression of membrane bound complement-regulatory proteins, the epitope, and binding kinetics have been implicated to influence IgG1-mediated CDC. Thus far, only a role for the epitope of IgA mAbs, as IgA-CD20-1 mAbs, could be established, derived from mIgG with better CDC activity, also activate complement better than IgA-CD20-2 mAbs. Whether the other properties are also important, needs to be elucidated.
  • ADCC by FcαRI expressing effector cells has been shown to be mediated faster by PMNs than by monocytes/macrophages. To determine the role of these immune effector cells in IgA-CD20-mediated B-cell depletion, CD19+ B cells were depleted in an autologous setting in the absence of a complement source. mAb-mediated depletion of CD19+ cells was generally better for IgA-CD20 mAbs than for RTX, with IgA1-CD20 mAbs performing the best. However, both isotypes induce the loss of CD19 expression. This is in line with previously published findings that B cells from healthy donors incubated with RTX lose their CD19 expression without undergoing cell death.(52) The same antigenic modulation was described for CD20, with 75-90% reduction in less than 45 minutes.(55) Neither shedding nor internalization were implicated in the loss of CD19. Instead, shaving/trogocytosis in an Fc-dependent manner, particularly mediated by neutrophils and monocytes, was described as the mechanism-of-action. It is speculated that the stronger engagement of PMNs by IgA mAbs compared to IgG1 mAbs eventually leads to tumor cell death by trogocytosis.(53-54)
  • The therapeutic dose of RTX should be carefully determined, as too high concentrations were shown to decrease Ab efficacy in the in vitro B-cell depletion assay. In contrast, this effect was not observed with IgA-CD20 mAbs. Nonetheless, as CD20 mAbs modulate the expression of B-cell markers, B-cell tracking might represent a better approach to properly determine mAb-mediated B-cell depletion.
    • Example 4 Characteristics of IgA CD20 Antibodies.
  • The human body uses IgA do defend itself against pathogens, predominantly on the mucosa barrier. It kills pathogens either via direct mechanisms or via neutrophil activation. Very low quantities of IgA can effectively trigger neutrophils via the Fcα receptor (FcαR). Importantly, neutrophils are far more effective killer cells than NK cells and possess excellent tissue penetration capacity. Thus, IgA seems an attractive antibody class for tumor immunotherapy. Nevertheless, it is difficult to develop clinical IgA antibodies. Until recently, there were no good in vivo model systems for IgA immunotherapy since mice lack expression of the FcαR. The research group has developed a transgenic mice that expresses human FcαR (CD89) on neutrophils. With this mouse model, it is demonstrated that therapeutic IgA antibodies can effectively defend mice against tumor outgrowth in several in vivo models, long-term and short-term on different locations, and in immunocompetent mice6. Using a unique locally developed immunization method, a broad panel of novel CD20 antibodies (all IgG) was obtained. Two of these antibodies have clinical potential, killing tumor cells in vitro more effectively than all currently available clinical CD20 antibodies. Both antibodies have now been transformed into chimeric antibodies with human IgA Fc fragment (+/−70% huIgA) and currently explored for their efficacy (FIG. 17 ).
  • CD20 Internalization
  • It has been described in references 77-79 that certain antibodies that are used therapeutically in lymphoma treatment (eg, rituximab and ofatumumab) undergo Fcγ receptor IIb (FcγRIIb)-mediated internalization from the B-cell surface with important implications for antibody-based therapeutics.
  • FcγR expression on target cells themselves is critical for this Ab-CD20 complex internalization. Immune effector cell Fc-FcγR interactions in trans act to deplete the target cell, particularly when the antigen is expressed at high levels. Although the importance of activating FcγR for the efficacy of rituximab in xenograft models was demonstrated before, now it is known that the inhibitory FcR, FcγRIIb, expressed on certain types of B-cell malignancies, also plays a role in Ab-CD20 complex internalization. FcγRIIb contains an immunoreceptor tyrosine-based inhibitory motif that recruits specific phosphatases and acts to oppose signaling by activating FcγRs. FcγRIIb-mediated internalization of rituximab from the B-cell surface was shown to limit effector cell engagement, an effect that may be particularly important in malignancies such as chronic lymphocytic leukemia and mantle cell lymphoma that express high levels of FcγRIIb and show reduced responses to CD20 mAb therapy.
  • This effect was not seen with the IgA antibodies of antibodies m1, m2, m7, m9, m10. These do not have this negative side effect. Indeed, when B cells were isolated from blood of healthy volunteers, CD20 IgG antibodies show a decrease of the CD20 target molecule of 40 to 60 percent, whereas with the IgA antibodies remained at a level of 80/6 on the cell surface of B cells (see FIGS. 25, 26.1, 26.2 and 26.3 ), suggesting that IgA antibodies have a diminished side effect on therapy compared to IgG antibodies.
    • Methods for CD20 Internalization
  • PBMC were separated from healthy donors by ficoll (GE healthcare) density gradient and used for B cell isolation using MACS human B cell isolation kit H (Milteny biotec). 5×10e4 isolated B cells were seeded in conical 96 wells plates and incubated with 1 ug/ml AlexaFluor 488 (AL488) labeled (Molecular Probes) Ab for 3 hours at 37° C./5% CO2. Unbound Ab was washed away and the AL488 signal quenched using 25 ug/ml goat-anti-AL488 (life technologies). % remaining CD20 is calculated as ((MFI unquenched−MFI quenched)/MFI unquenched)×100.
    • Example 5 Materials and Methods
  • ADCC Assay
  • ADCC assays with 51Cr-labeled target cells were performed as previously described.(2 2) Briefly, PBMC and PMN isolated from healthy individuals (MiniDonorDienst UMC Utrecht) by Ficoll/Histopaque separation (GE Healthcare) were combined with 51Cr-labeled Daudi cells (effector-to-target ratio=100:1) and CD20 mAb in dilution. After 4 hours incubation at 37° C./5% CO2, the supernatant was harvested and counted in a liquid scintillation counter (MicroBeta; Perkin Elmer). Lysis was calculated using the following formula: % lysis=((counts of sample−minimum release)/(maximum release−minimum release))×100. Daudi cells with effector cells in culture medium or in medium supplemented with 5% Triton X-100 (Roche Diagnostics) were used to determine minimum and maximum release, respectively.
  • EL4-CD20 Lymphoma Model
  • C57BL/6 mice were purchased from Janvier (France) or bred in the facilities. 4-6 mice/group were injected intraperitoneally (i.p.) with 5×105 CellTraceViolet (10 μM, Invitrogen)-labeled EL4-CD20 cells. After 16 hours, mice were treated with mAb or PBS (100 μl injected i.p. A peritoneal lavage with PBS containing 5 mM EDTA was performed after 24 hours and the amount of remaining tumor cells was determined using TruCount tubes (BD). All experiments were approved by the Animal Ethical Committee of the UMC Utrecht.
  • Saturation of CD20 on EL4-CD20 Lymphoma Cells
  • After performing the previously described EL-4 lymphoma model, collected tumor cells were washed twice with PBS and stained with secondary IgA or IgG-PE labelled antibody. Saturation of CD20 with anti-CD20 antibody was shown if no increased signal was present after adding antibody (10 μg/ml) ex vivo to the cells before staining with secondary antibody. Shaving of CD20 was determined by comparing CD20 expression on EL4 cells from PBS treated mice against antibody treated mice.
    • Results
  • Functional Characterization:
  • The ability of the antibodies to bind to CD20-expressing Ramos cells and the functionality of the antibodies on PCD are depicted in FIG. 13 and FIG. 14 . The ability of IgG1- and IgA-CD20 mAbs to induce CDC is depicted in FIGS. 15A-15C (see also Example 3). The ability of the new IgA-CD20 mAbs to induce PMN-mediated tumor cell lysis in a chromium release assay is depicted in FIGS. 27A, 27B. IgA1 antibodies do have similar ADCC potential, but IgA1-CD20 UMAB007 is the most effective (FIG. 27A). For IgA2 antibodies, all antibodies show a similar effectivity, but IgA2-CD20 UMAB010 has the highest killing potential (FIG. 27B). Next, the ability of the IgA-CD20 mAbs to deplete human B cells was analyzed. Incubation of leukocytes from healthy donors with the mAbs resulted in a concentration-dependent decline of CD19+ events (FIG. 16A). This effect was comparable between RTX and the IgA-CD20 mAbs. The number of CD19− events (FIG. 16B) steadily decreased for all IgA-CD20 mAbs and reached a plateau between 0.05 and 0.5 μg/mL mAbs. In contrast, the number of CD19+ events upon RTX incubation reached a minimum at 0.05 μg/mL, but increased 5 at higher concentrations again. For both isotypes, the number of CD19- events reached an optimum between 0.05 to 0.5 μg/mL (FIG. 16C). The in vivo efficacy of a selection of these antibodies was studied in the EL4-CD20 lymphoma model (FIGS. 28A-28C). IgA2-CD20 UMAB002 and IgA1-CD20 UMAB007 were as potent as rituximab, which shows the potential of IgA antibodies in vivo. Finally, it was shown that loss of CD20 expression was seen after treatment with rituximab (FIG. 28A), but that expression is not lowered after treatment with IgA antibodies (FIGS. 28B, 28C). Next the CD20 expression of the EL4-CD20 cells was determined in the samples. It is shown that CD20 expression is lost after IgG treatment, but not after IgA treatment in vivo (FIG. 29 ). Umab 002 and 007 seem to perform better than umab 001 in this particular assay. IgA2 appears to be the better isotype for umab 001 and umab 002, while IgA1 is better in combination with umab 007. IgA1-CD20 UMAB . . . where the dots indicate three digits is an antibody with the indicated constant region and a variable domain of one of the five specified murine antibody. The last digit of the UMAB reference indicates the variable domain of the m antibody with the same digit.
  • TABLE 1
    Panel of novel CD20 mIgG antibodies.
    sequencing
    mouse # name isotype HC LC purified
    1 m1 IgG2c x x x
    m2 IgG2c x x x
    m3 IgG2b x x x
    m4 IgG2b x x x
    m5 IgG2b x x x
    m6 IgG2b x x x
    m7 IgG2b x x x
    2 m8 IgG2b x x
    m9 IgG2c x x x
    3 m10 IgG2c x x x
    m11 IgG2b x x
    4 m12 unknown x
    5 m13 IgG2c x x
    m14 IgG2c x
    m15 IgG2c x x
    6 m16 IgG3 x x
    m17 IgG2b x x x
  • TABLE 2
    Functionality in vitro
    Name CDC ADCC PCD
    m1 (mIgG2c) +++ ++ −
    IgG1-CD20-1 + + ++
    m2 (mIgG2c) + ++ −
    IgG1-CD20-2 +/− +++ −
    m7 (mIgG2b) +++ − −
    IgG1-CD20-7 +++ ++ −
    m9 (mIgG2c) +++ ++ −
    IgG1-CD20-9 ++ +++ −
    m10 (mIgG2c) ++ ++ −
    IgG1-CD20-10 + +++ −
  • TABLE 3
    Affinity values of CD20 mAbs. Values were obtained by fitting a
    OneToOne binding model to the binding curves that had an association
    time of one hour and a dissociation time of three hours. The affinity
    (KD) is obtained from the ratio between the dissociation rate constant
    (koff) and the association rate constant (kon).
    non-competitive competitive
    kon (1/M*s) koff (1/s) KD (nM) kon (1/M*s) koff (1/s) KD (nM)
    m1 3.73E+04 3.91E-05 1.05 2.61E+04 6.92E-05 2.65
    m2 8.54E+04 1.77E-05 0.21 8.17E+04 7.80E-05 0.96
    m9 4.57E+04 1.13E-05 0.25 5.39E+04 6.53E-06 0.12
    m10 4.42E+04 8.17E-06 0.19 5.57E+04 2.82E-05 0.51
    OFA 5.01E+04 5.71E-06 0.11 7.70E+04 3.06E-05 0.40
    RTX 5.14E+04 3.05E-05 0.59 7.35E+04 5.50E-05 0.75
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Claims (19)

1.-15. (canceled)
16. A method of treating an FcγRIIb-expressing cancer in a subject, the method comprising administering to the subject a composition that comprises an engineered monomeric IgA antibody in an amount sufficient to treat the FcγRIIb-expressing cancer in the subject,
wherein the monomeric IgA antibody comprises an IgA heavy chain constant region, and does not comprise any IgG constant region domain; and
wherein the monomeric IgA antibody induces caspase-independent programmed cell death (PCD) of FcγRIIb-expressing cancer cells to a great extent relative to caspase-independent programmed cell death (PCD) of FcγRIIb-expressing cancer cells induced by a corresponding IgG antibody that has the same variable region complementarity determining regions (CDRs) as the engineered monomeric IgA antibody, as determined in an in vitro assay comprising:
(i) contacting a first population of cancer cells that express FcγRIIb with the engineered monomeric IgA antibody,
(ii) contacting a second population of cancer cells that express FcγRIIb with the corresponding IgG antibody,
(iii) contacting the first population of cancer cells and the second population of cancer cells with Annexin V, and
(iv) comparing an amount of fluorescence exhibited by the first population of cancer cells and the second population of cancer cells using a FACS cell sorter, wherein a greater amount of fluorescence indicates a greater amount of PCD.
17. The method of claim 16, wherein the engineered monomeric IgA antibody is an IgA1 antibody.
18. The method of claim 16, wherein the engineered monomeric IgA antibody is an IgA2 antibody.
19. The method of claim 16, wherein the FcγRIIb-expressing cancer is resistant to the corresponding IgG antibody.
20. The method of claim 16, wherein the IgA heavy chain constant region comprises 1-5 substitutions, insertions, or deletions, relative to the amino acid sequence of SEQ ID NO:4.
21. The method of claim 16, wherein the IgA heavy chain constant region comprises 1-5 substitutions, insertions, or deletions, relative to the amino acid sequence of SEQ ID NO:5.
22. The method of claim 16, wherein the IgA heavy chain constant region comprises an IgA2 hinge.
23. The method of claim 16, wherein the engineered monomeric IgA antibody induces antibody-dependent cell-mediated cytotoxicity (ADCC) of the cancer cell.
24. The method of claim 23, wherein the engineered monomeric IgA antibody facilitates increased ADCC of the cancer cell, relative to the corresponding IgG antibody.
25. The method of claim 16, wherein the engineered monomeric IgA antibody induces antibody-dependent cell-mediated phagocytosis (ADCP) of the cancer cell.
26. The method of claim 16, wherein the PCD is neutrophil-mediated PCD.
27. The method of claim 16, wherein the PCD is macrophage-mediated PCD.
28. The method of claim 16, wherein the engineered monomeric IgA antibody binds to FcαRI.
29. The method of claim 16, wherein the engineered monomeric IgA antibody binds to an antigen selected from the group consisting of: CD20, EGFR, and Her2.
30. The method of claim 16, wherein the FcγRIIb-expressing cancer is a solid tumor cancer.
31. The method of claim 16, wherein the FcγRIIb-expressing cancer is lymphoma.
32. The method of claim 16, wherein the subject is a human.
33. The method of claim 16, wherein the subject is a child.
US17/841,326 2016-09-01 2022-06-15 Engineered antibodies and methods of treatment Pending US20230022731A1 (en)

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