6ZVF | pdb_00006zvf

Crystal structure of the recombinant Fab fragment derived from the hybridoma M3/38 in complex with a human Galectin-3 peptide

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth L]	C1-set_4	e6zvfL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
A [auth L]	V-set	e6zvfL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
B [auth H]	V-set_8	e6zvfH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
B [auth H]	C1-set_1	e6zvfH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L]	Light Chain	IGKV1	Kappa	galectin-3	SAbDab (2025-12-19)
B [auth H]	Heavy Chain	IGHV9	-	galectin-3	SAbDab (2025-12-19)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L]	Chimeric Fab M3/38 (L,H)	-	-	-
B [auth H]	Chimeric Fab M3/38 (L,H)	-	-	-
C [auth P]	Galectin-3	enzyme regulator activity phosphatase inhibitor activity molecular function inhibitor activity phosphatase regulator activity molecular function regulator activity protein phosphatase regulator activity protein phosphatase inhibitor activity enzyme inhibitor activity oligosaccharide binding binding disaccharide binding carbohydrate binding extracellular matrix binding protein binding enzyme regulator activity phosphatase inhibitor activity molecular function inhibitor activity phosphatase regulator activity molecular function regulator activity protein phosphatase regulator activity protein phosphatase inhibitor activity enzyme inhibitor activity oligosaccharide binding binding disaccharide binding carbohydrate binding extracellular matrix binding protein binding laminin binding protein phosphatase binding phosphatase binding enzyme binding receptor ligand inhibitor activity molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity IgE binding protein-containing complex binding immunoglobulin binding RNA binding nucleic acid binding molecular function activator activity signaling receptor binding signaling receptor regulator activity receptor ligand activity chemoattractant activity signaling receptor activator activity signaling receptor inhibitor activity	multicellular organismal process regulation of cellular process regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation T cell activation lymphocyte proliferation regulation of immune system process regulation of multicellular organismal process T cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation multicellular organismal process regulation of cellular process regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation T cell activation lymphocyte proliferation regulation of immune system process regulation of multicellular organismal process T cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation regulation of biological process cell population proliferation biological regulation cell activation regulation of T cell activation regulation of T cell proliferation regulation of cell population proliferation mononuclear cell proliferation immune system process regulation of mononuclear cell proliferation cellular process regulation of lymphocyte activation positive regulation of protein localization to plasma membrane regulation of localization cellular localization regulation of protein localization positive regulation of biological process localization intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery protein localization to cell periphery protein localization to plasma membrane positive regulation of protein localization to membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of cellular localization macromolecule localization positive regulation of protein localization regulation of protein localization to plasma membrane positive regulation of cellular component organization regulation of cellular component organization protein-containing complex organization positive regulation of cellular component biogenesis regulation of cellular component biogenesis cellular component organization cellular component biogenesis positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular component organization or biogenesis cell chemotaxis cellular response to stimulus chemotaxis response to stimulus neutrophil chemotaxis response to external stimulus neutrophil migration granulocyte migration leukocyte migration cellular response to chemical stimulus taxis granulocyte chemotaxis response to chemical myeloid leukocyte migration cell migration cell motility leukocyte chemotaxis locomotion mononuclear cell migration biological process involved in interspecies interaction between organisms immune response response to other organism defense response defense response to symbiont response to biotic stimulus defense response to other organism response to stress innate immune response response to external biotic stimulus extrinsic apoptotic signaling pathway via death domain receptors signaling regulation of signal transduction regulation of programmed cell death extrinsic apoptotic signaling pathway cell communication signal transduction regulation of signaling cell surface receptor signaling pathway regulation of apoptotic process cell death regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway regulation of response to stimulus regulation of extrinsic apoptotic signaling pathway via death domain receptors regulation of cell communication apoptotic process programmed cell death regulation of apoptotic signaling pathway positive chemotaxis developmental process epithelium development cellular developmental process cell differentiation anatomical structure development tissue development epithelial cell differentiation RNA metabolic process primary metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA processing mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process RNA processing RNA splicing immune response-regulating cell surface receptor signaling pathway negative regulation of signaling negative regulation of biological process regulation of antigen receptor-mediated signaling pathway negative regulation of antigen receptor-mediated signaling pathway negative regulation of cell communication positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response negative regulation of cellular process positive regulation of immune system process immune response-activating cell surface receptor signaling pathway negative regulation of response to stimulus regulation of T cell receptor signaling pathway T cell receptor signaling pathway negative regulation of signal transduction negative regulation of T cell receptor signaling pathway negative regulation of immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response immunological synapse formation negative regulation of immunological synapse formation regulation of immunological synapse formation negative regulation of lymphocyte activation cell recognition cell-cell recognition negative regulation of cell activation negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of calcium ion import regulation of calcium ion transport positive regulation of calcium ion transport positive regulation of calcium ion import transport regulation of transport regulation of monoatomic ion transport establishment of localization calcium ion transport metal ion transport positive regulation of transport positive regulation of monoatomic ion transport monoatomic ion transport calcium ion import monoatomic cation transport regulation of metal ion transport import into cell negative regulation of cellular component organization negative regulation of transport negative regulation of endocytosis regulation of vesicle-mediated transport vesicle-mediated transport endocytosis regulation of endocytosis eosinophil chemotaxis eosinophil migration negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of programmed cell death negative regulation of apoptotic process regulation of alpha-beta T cell activation leukocyte cell-cell adhesion negative regulation of cell adhesion cell adhesion cell-cell adhesion alpha-beta T cell activation regulation of cell-cell adhesion regulation of cell adhesion negative regulation of NK T cell activation regulation of NK T cell activation NK T cell activation negative regulation of T cell activation negative regulation of leukocyte cell-cell adhesion negative regulation of cell-cell adhesion regulation of leukocyte cell-cell adhesion negative regulation of alpha-beta T cell activation monocyte chemotaxis positive regulation of locomotion regulation of cell motility positive regulation of cell migration positive regulation of cell motility positive regulation of mononuclear cell migration regulation of cell migration regulation of mononuclear cell migration regulation of leukocyte migration positive regulation of leukocyte migration regulation of locomotion regulation of leukocyte apoptotic process regulation of lymphocyte apoptotic process leukocyte apoptotic process lymphocyte apoptotic process regulation of T cell apoptotic process T cell apoptotic process macrophage chemotaxis macrophage migration regulation of immune effector process cell activation involved in immune response T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell negative regulation of immune response negative regulation of immune effector process immune effector process T cell activation involved in immune response leukocyte activation involved in immune response lymphocyte activation involved in immune response regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cellular anatomical structure membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol mitochondrial membrane organelle inner membrane mitochondrion intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle membrane cell surface cell periphery plasma membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen immunological synapse intracellular vesicle endomembrane system cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle secretory granule secretory vesicle secretory granule membrane protein-containing complex nuclear protein-containing complex spliceosomal complex ribonucleoprotein complex ficolin-1-rich granule membrane ficolin-1-rich granule tertiary granule

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth P]	IPR044156	Galectin-like	Family
C [auth P]	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
C [auth P]	IPR001079	Galectin, carbohydrate recognition domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth P]	Pharos: P17931	melanoma Neoplasm Metastasis nephritis esophageal cancer large cell medulloblastoma lung carcinoma malignant glioma malignant pancreatic neoplasm B-cell chronic lymphocytic leukemia dermatomyositis drug-induced liver injury pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma glioblastoma subependymal giant cell astrocytoma melanoma Neoplasm Metastasis nephritis esophageal cancer large cell medulloblastoma lung carcinoma malignant glioma malignant pancreatic neoplasm B-cell chronic lymphocytic leukemia dermatomyositis drug-induced liver injury pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma glioblastoma subependymal giant cell astrocytoma hereditary diffuse gastric adenocarcinoma limb-girdle muscular dystrophy malignant colon neoplasm malignant mesothelioma MALT lymphoma cancer nasopharyngeal carcinoma neoplasm of esophagus ovarian cancer Duchenne muscular dystrophy pancreatic intraductal papillary-mucinous neoplasm gastric cancer pituitary cancer vascular disease invasive ductal breast carcinoma malignant ependymoma astrocytic tumor medulloblastoma cutaneous melanoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia gastric neoplasm

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C [auth P]	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.