5OCC

Crystal structure of CD32b (Fc Gamma Receptor IIb) in complex with Human IgG1 Fab fragment (6G08)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d5occa1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	I set domains	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B [auth H]	d5occh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth L]	d5occl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth L]	d5occl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8055586	3000071	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054819	3000071	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF13895	e5occA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF13895	ECOD (1.6)
B [auth H]	PF07654	e5occH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B [auth H]	PF07686	e5occH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
C [auth L]	PF07654	e5occL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
C [auth L]	PF07686	e5occL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
A	CD32b (Fc Gamma Receptor IIb)	MADCAM1	Homo sapiens (human)	FCGR2B*01	C-LIKE-DOMAIN C-LIKE	RPI	MADCAM1	IMGT (202416-0)
B [auth H]	Fab 6G08	VH-CH1	Homo sapiens (human)	IGHV3-2301, IGHV3-23D01, IGHJ302, IGHG101, IGHG102, IGHG104, IGHG1*05	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_LAMBDA	IMGT (202416-0)
C [auth L]	Fab 6G08	L-LAMBDA	Homo sapiens (human)	IGLV1-4701, IGLV1-4702, IGLJ201, IGLJ302, IGLJ301, IGLC102	V-DOMAIN V-LAMBDA, C-DOMAIN C-LAMBDA	IG	FAB-GAMMA-1_LAMBDA	IMGT (202416-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV3	-	low affinity immunoglobulin gamma fc region receptor ii-b	SAbDab (2024-04-26)
C [auth L]	Light Chain	IGLV1	Lambda	low affinity immunoglobulin gamma fc region receptor ii-b	SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13895	Immunoglobulin domain (Ig_2)	Immunoglobulin domain	This domain contains immunoglobulin-like domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Low affinity immunoglobulin gamma Fc region receptor II-b	amide binding amyloid-beta binding binding peptide binding molecular transducer activity immunoglobulin receptor activity transmembrane signaling receptor activity signaling receptor activity IgG receptor activity immune receptor activity low-affinity IgG receptor activity protein-containing complex binding immunoglobulin binding IgG binding	cellular response to stimulus neuron apoptotic process regulation of cellular process response to stimulus signaling regulation of cellular response to stress regulation of response to endoplasmic reticulum stress regulation of signal transduction intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway intracellular signal transduction cell communication regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway cellular response to stress cellular response to stimulus neuron apoptotic process regulation of cellular process response to stimulus signaling regulation of cellular response to stress regulation of response to endoplasmic reticulum stress regulation of signal transduction intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway intracellular signal transduction cell communication regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress regulation of endoplasmic reticulum stress-induced neuron intrinsic apoptotic signaling pathway signal transduction intrinsic apoptotic signaling pathway response to endoplasmic reticulum stress regulation of biological process regulation of signaling regulation of apoptotic process biological regulation cell death apoptotic signaling pathway regulation of response to stimulus regulation of cell communication cellular process apoptotic process programmed cell death neuron intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress regulation of neuron apoptotic process regulation of apoptotic signaling pathway adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity immune response immune system process B cell mediated immunity leukocyte mediated immunity immunoglobulin mediated immune response adaptive immune response immune effector process negative regulation of lymphocyte proliferation multicellular organismal process regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte proliferation leukocyte activation negative regulation of mononuclear cell proliferation negative regulation of leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation regulation of B cell activation negative regulation of cellular process regulation of multicellular organismal process regulation of immune system process negative regulation of B cell activation regulation of lymphocyte proliferation regulation of leukocyte proliferation negative regulation of cell population proliferation cell population proliferation B cell activation cell activation B cell proliferation negative regulation of B cell proliferation negative regulation of cell activation negative regulation of immune system process regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation membrane organization import into cell transport establishment of localization vesicle-mediated transport cellular component organization localization phagocytosis, engulfment membrane invagination phagocytosis cellular component organization or biogenesis endocytosis plasma membrane invagination cellular developmental process cell development mononuclear cell differentiation mature B cell differentiation B cell activation involved in immune response cell activation involved in immune response lymphocyte differentiation B cell differentiation cell differentiation leukocyte activation involved in immune response anatomical structure development lymphocyte activation involved in immune response developmental process mature B cell differentiation involved in immune response hemopoiesis follicular B cell differentiation leukocyte differentiation regulation of immune effector process immunoglobulin production cellular biosynthetic process negative regulation of cellular metabolic process organic substance metabolic process organic substance biosynthetic process negative regulation of macromolecule metabolic process negative regulation of immunoglobulin production regulation of biosynthetic process production of molecular mediator of immune response cellular metabolic process negative regulation of metabolic process negative regulation of immune effector process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of production of molecular mediator of immune response negative regulation of gene expression biosynthetic process regulation of immunoglobulin production negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of production of molecular mediator of immune response regulation of metabolic process negative regulation of response to stimulus negative regulation of immune response regulation of immune response regulation of adaptive immune response regulation of humoral immune response humoral immune response positive regulation of biological process positive regulation of response to stimulus positive regulation of humoral immune response positive regulation of immune response positive regulation of immune system process regulation of localization positive regulation of cellular component organization regulation of cellular component organization positive regulation of endocytosis positive regulation of cellular process regulation of endocytosis regulation of transport regulation of phagocytosis regulation of vesicle-mediated transport positive regulation of phagocytosis positive regulation of transport head development animal organ development brain development nervous system development multicellular organism development cerebellum development central nervous system development metencephalon development hindbrain development system development regulation of leukocyte differentiation regulation of developmental process negative regulation of dendritic cell differentiation regulation of cell differentiation regulation of cell development negative regulation of cell differentiation negative regulation of hemopoiesis regulation of multicellular organismal development negative regulation of leukocyte differentiation negative regulation of developmental process regulation of dendritic cell differentiation negative regulation of cell development regulation of hemopoiesis dendritic cell differentiation defense response cytokine production regulation of cytokine production negative regulation of cytokine production positive regulation of cell communication positive regulation of signal transduction positive regulation of JNK cascade JNK cascade intracellular signaling cassette positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade positive regulation of signaling positive regulation of response to endoplasmic reticulum stress regulation of dendritic cell antigen processing and presentation negative regulation of dendritic cell antigen processing and presentation antigen processing and presentation regulation of antigen processing and presentation negative regulation of antigen processing and presentation dendritic cell antigen processing and presentation regulation of signaling receptor activity regulation of molecular function regulation of myeloid leukocyte mediated immunity regulation of acute inflammatory response to antigenic stimulus regulation of type IIa hypersensitivity negative regulation of lymphocyte mediated immunity myeloid leukocyte mediated immunity inflammatory response to antigenic stimulus antibody-dependent cellular cytotoxicity negative regulation of inflammatory response to antigenic stimulus regulation of type II hypersensitivity negative regulation of myeloid leukocyte mediated immunity hypersensitivity negative regulation of B cell mediated immunity negative regulation of type II hypersensitivity negative regulation of type IIa hypersensitivity regulation of inflammatory response response to external stimulus negative regulation of adaptive immune response leukocyte mediated cytotoxicity regulation of B cell mediated immunity negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte mediated immunity negative regulation of hypersensitivity type II hypersensitivity negative regulation of immunoglobulin mediated immune response negative regulation of response to external stimulus type IIa hypersensitivity negative regulation of defense response regulation of acute inflammatory response regulation of cell killing inflammatory response regulation of defense response negative regulation of acute inflammatory response regulation of response to external stimulus negative regulation of inflammatory response negative regulation of acute inflammatory response to antigenic stimulus negative regulation of antibody-dependent cellular cytotoxicity regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of immunoglobulin mediated immune response negative regulation of leukocyte mediated cytotoxicity negative regulation of cell killing acute inflammatory response regulation of hypersensitivity regulation of inflammatory response to antigenic stimulus regulation of leukocyte mediated cytotoxicity acute inflammatory response to antigenic stimulus regulation of lymphocyte mediated immunity negative regulation of leukocyte mediated immunity regulation of antibody-dependent cellular cytotoxicity cell killing regulation of macrophage activation myeloid leukocyte activation macrophage activation negative regulation of macrophage activation regulation of humoral immune response mediated by circulating immunoglobulin humoral immune response mediated by circulating immunoglobulin negative regulation of humoral immune response mediated by circulating immunoglobulin negative regulation of humoral immune response receptor-mediated endocytosis follicular dendritic cell activation immune response-regulating cell surface receptor signaling pathway cell surface receptor signaling pathway Fc receptor signaling pathway immune response-regulating signaling pathway Fc-gamma receptor signaling pathway regulation of immune complex clearance by monocytes and macrophages immune complex clearance by monocytes and macrophages immune complex clearance dendritic spine maintenance cell projection organization cellular component maintenance regulation of dendritic spine maintenance regulation of synapse structure or activity synapse organization regulation of biological quality plasma membrane bounded cell projection organization dendritic spine organization postsynapse organization regulation of cell projection organization regulation of postsynapse organization regulation of synapse organization cell junction organization neuron projection organization regulation of plasma membrane bounded cell projection organization antigen processing and presentation of exogenous peptide antigen via MHC class II antigen processing and presentation of peptide or polysaccharide antigen via MHC class II antigen processing and presentation of peptide antigen via MHC class II antigen processing and presentation of exogenous peptide antigen antigen processing and presentation of peptide antigen antigen processing and presentation of exogenous antigen T cell mediated immunity regulated exocytosis negative regulation of transport leukocyte degranulation negative regulation of cytotoxic T cell degranulation negative regulation of secretion T cell activation establishment of localization in cell cytotoxic T cell degranulation negative regulation of secretion by cell regulation of T cell mediated immunity negative regulation of T cell mediated cytotoxicity regulation of secretion regulation of T cell mediated cytotoxicity exocytosis negative regulation of T cell mediated immunity cellular localization negative regulation of regulated secretory pathway negative regulation of leukocyte degranulation regulation of regulated secretory pathway secretion by cell regulation of secretion by cell T cell activation involved in immune response negative regulation of exocytosis regulation of leukocyte degranulation T cell mediated cytotoxicity secretion export from cell regulation of exocytosis regulation of cytotoxic T cell degranulation negative regulation of interleukin-10 production interleukin-10 production regulation of interleukin-10 production neutrophil activation regulation of neutrophil activation negative regulation of neutrophil activation granulocyte activation B cell antigen processing and presentation regulation of B cell antigen processing and presentation regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms response to biotic stimulus innate immune response response to external biotic stimulus response to other organism regulation of innate immune response defense response to symbiont defense response to other organism response to organic substance cellular response to molecule of bacterial origin cellular response to biotic stimulus response to chemical response to bacterium response to molecule of bacterial origin regulation of B cell receptor signaling pathway negative regulation of signaling regulation of antigen receptor-mediated signaling pathway negative regulation of antigen receptor-mediated signaling pathway negative regulation of cell communication negative regulation of B cell receptor signaling pathway immune response-activating signaling pathway immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway negative regulation of signal transduction antigen receptor-mediated signaling pathway activation of immune response regulation of type I hypersensitivity type I hypersensitivity negative regulation of type I hypersensitivity negative regulation of endocytosis negative regulation of phagocytosis negative regulation of cellular component organization cellular response to nitrogen compound response to organonitrogen compound response to endogenous stimulus response to oxygen-containing compound response to nitrogen compound cellular response to amyloid-beta cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus cellular response to organonitrogen compound cellular response to organic substance response to amyloid-beta	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane neuron spine synapse neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane neuron spine synapse neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection postsynapse cell junction dendrite dendritic tree cell body
B [auth H]	6G08 Fab heavy chain	-	-	-
C [auth L]	6G08 Fab Light Chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR003599	Immunoglobulin subtype	Domain
A	IPR003598	Immunoglobulin subtype 2	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P31994	systemic lupus erythematosus autoimmune disease neutropenia malaria rheumatoid arthritis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis interstitial cystitis Libman-Sacks Disease lupus erythematosus malignant colon neoplasm pancreatic intraductal papillary-mucinous carcinoma periodontitis Sjogren syndrome ulcerative colitis systemic lupus erythematosus autoimmune disease neutropenia malaria rheumatoid arthritis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia tuberculosis interstitial cystitis Libman-Sacks Disease lupus erythematosus malignant colon neoplasm pancreatic intraductal papillary-mucinous carcinoma periodontitis Sjogren syndrome ulcerative colitis cancer invasive ductal breast carcinoma lung cancer malignant glioma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis glioblastoma leukopenia lung carcinoma MALT lymphoma pancreatic ductal adenocarcinoma

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 R01GM133198.