Annotations: 7YTC

Cryo-EM structure of human FcmR bound to IgM-Fc/J

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L [auth R]	FAD_binding_4	e7ytcR1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
K [auth L]	FAD_binding_4	e7ytcL1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
J [auth K]	FAD_binding_4	e7ytcK1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
H	FAD_binding_4	e7ytcH1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
G	FAD_binding_4	e7ytcG1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
F	FAD_binding_4	e7ytcF1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
E	FAD_binding_4	e7ytcE1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
D	FAD_binding_4	e7ytcD1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
C	FAD_binding_4	e7ytcC1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
B	FAD_binding_4	e7ytcB1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)
A	FAD_binding_4	e7ytcA1	A: a/b three-layered sandwiches	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: FAD_binding_4	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [auth R]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
K [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
J [auth K]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
H	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
G	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
L [auth R]	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	PF07654	Immunoglobulin C1-set domain (C1-set)	Immunoglobulin C1-set domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
L [auth R]	Fas apoptotic inhibitory molecule 3	protein-containing complex binding binding immunoglobulin binding IgM binding polymeric immunoglobulin binding IgM receptor activity molecular transducer activity immunoglobulin receptor activity transmembrane signaling receptor activity signaling receptor activity immune receptor activity high-affinity IgM receptor activity	localization multicellular organismal process transport cellular process establishment of localization immunoglobulin transcytosis in epithelial cells transcytosis vesicle-mediated transport regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process localization multicellular organismal process transport cellular process establishment of localization immunoglobulin transcytosis in epithelial cells transcytosis vesicle-mediated transport regulation of biological process regulation of cellular process negative regulation of programmed cell death regulation of apoptotic process biological regulation negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death import into cell Fc receptor-mediated immune complex endocytosis receptor-mediated endocytosis endocytosis response to stimulus defense response response to stress cellular defense response adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity humoral immune response immune response immunoglobulin mediated immune response adaptive immune response immune effector process humoral immune response mediated by circulating immunoglobulin immune system process B cell mediated immunity leukocyte mediated immunity cellular response to stimulus signaling signal transduction cell communication regulation of B cell receptor signaling pathway immune response-regulating cell surface receptor signaling pathway positive regulation of biological process regulation of antigen receptor-mediated signaling pathway regulation of signal transduction positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process regulation of signaling cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway regulation of response to stimulus regulation of immune response regulation of cell communication antigen receptor-mediated signaling pathway activation of immune response	vacuolar membrane membrane-bounded organelle intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle lysosomal membrane cytoplasm vacuolar membrane membrane-bounded organelle intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle lysosomal membrane cytoplasm organelle membrane lysosome Golgi apparatus endomembrane system extracellular region endosome membrane early endosome endosome intracellular vesicle early endosome membrane cytoplasmic vesicle membrane cytoplasmic vesicle vesicle membrane vesicle centrosome microtubule organizing center cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton Golgi apparatus subcompartment organelle subcompartment trans-Golgi network membrane trans-Golgi network cell periphery plasma membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
I [auth J]	Immunoglobulin J chain	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity protein-containing complex binding immunoglobulin binding IgA binding signaling receptor binding immunoglobulin receptor binding protein-macromolecule adaptor activity molecular adaptor activity antigen binding	cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of biological process positive regulation of respiratory burst regulation of cellular process biological regulation positive regulation of biological process positive regulation of metabolic process respiratory burst cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular process cellular component organization or biogenesis regulation of biological process positive regulation of respiratory burst regulation of cellular process biological regulation positive regulation of biological process positive regulation of metabolic process respiratory burst metabolic process regulation of respiratory burst regulation of metabolic process positive regulation of cellular process response to stimulus immune response immune system process adaptive immune response humoral immune response biological process involved in interspecies interaction between organisms response to other organism defense response antibacterial humoral response defense response to symbiont response to external stimulus antimicrobial humoral response response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus innate immune response multicellular organismal process renal system process system process glomerular filtration renal filtration	cellular anatomical structure extracellular region blood microparticle IgA immunoglobulin complex, circulating dimeric IgA immunoglobulin complex protein-containing complex IgA immunoglobulin complex extracellular protein-containing complex polymeric IgA immunoglobulin complex immunoglobulin complex, circulating immunoglobulin complex secretory IgA immunoglobulin complex extracellular exosome membrane-bounded organelle cellular anatomical structure extracellular region blood microparticle IgA immunoglobulin complex, circulating dimeric IgA immunoglobulin complex protein-containing complex IgA immunoglobulin complex extracellular protein-containing complex polymeric IgA immunoglobulin complex immunoglobulin complex, circulating immunoglobulin complex secretory IgA immunoglobulin complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle monomeric IgA immunoglobulin complex IgM immunoglobulin complex IgM immunoglobulin complex, circulating pentameric IgM immunoglobulin complex secretory dimeric IgA immunoglobulin complex
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	Immunoglobulin heavy constant mu	binding antigen binding	cellular response to stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process response to stimulus signaling positive regulation of biological process cell communication positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process cellular response to stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process response to stimulus signaling positive regulation of biological process cell communication positive regulation of response to stimulus immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process signal transduction positive regulation of immune system process regulation of biological process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway immune response B cell receptor signaling pathway biological regulation regulation of response to stimulus immune system process regulation of immune response cellular process antigen receptor-mediated signaling pathway activation of immune response adaptive immune response biological process involved in interspecies interaction between organisms response to other organism defense response response to external stimulus defense response to Gram-negative bacterium response to biotic stimulus defense response to bacterium response to bacterium response to stress response to external biotic stimulus humoral immune response antibacterial humoral response defense response to symbiont antimicrobial humoral response defense response to other organism innate immune response multicellular organismal process cellular developmental process immature B cell differentiation cell development mononuclear cell differentiation pre-B cell allelic exclusion pre-B cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation anatomical structure development developmental process regulation of biosynthetic process hemopoiesis B cell activation cell activation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process leukocyte differentiation	hexameric IgM immunoglobulin complex protein-containing complex cellular anatomical structure IgM immunoglobulin complex IgM immunoglobulin complex, circulating extracellular region extracellular protein-containing complex immunoglobulin complex, circulating immunoglobulin complex blood microparticle plasma membrane protein complex membrane plasma membrane IgM B cell receptor complex hexameric IgM immunoglobulin complex protein-containing complex cellular anatomical structure IgM immunoglobulin complex IgM immunoglobulin complex, circulating extracellular region extracellular protein-containing complex immunoglobulin complex, circulating immunoglobulin complex blood microparticle plasma membrane protein complex membrane plasma membrane IgM B cell receptor complex membrane protein complex B cell receptor complex cell periphery plasma membrane signaling receptor complex signaling receptor complex extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle organelle vesicle extracellular membrane-bounded organelle pentameric IgM immunoglobulin complex cell surface

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
L [auth R]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
L [auth R]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
L [auth R]	IPR013106	Immunoglobulin V-set domain	Domain
L [auth R]	IPR003599	Immunoglobulin domain subtype	Domain
L [auth R]	IPR050671	CD300 family immune receptors	Family
I [auth J]	IPR024110	Immunoglobulin J chain	Family
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	IPR050380	Immune Recognition and Response Modulators	Family
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	IPR003597	Immunoglobulin C1-set	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	IPR007110	Immunoglobulin-like domain	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
L [auth R]	: O60667	nasopharyngeal carcinoma psoriasis atypical teratoid rhabdoid tumor Chemically-Induced Liver Toxicity glioblastoma interstitial cystitis lung cancer malignant glioma osteosarcoma Sjogren syndrome B-cell chronic lymphocytic leukemia cutaneous lupus erythematosus drug-induced liver injury invasive ductal breast carcinoma lymphoplasmacytic lymphoma nasopharyngeal carcinoma psoriasis atypical teratoid rhabdoid tumor Chemically-Induced Liver Toxicity glioblastoma interstitial cystitis lung cancer malignant glioma osteosarcoma Sjogren syndrome B-cell chronic lymphocytic leukemia cutaneous lupus erythematosus drug-induced liver injury invasive ductal breast carcinoma lymphoplasmacytic lymphoma medulloblastoma ovarian cancer ulcerative colitis ductal breast carcinoma in situ large cell medulloblastoma malignant ependymoma
I [auth J]	: P01591	pancreatic intraductal papillary-mucinous neoplasm psoriasis B-cell chronic lymphocytic leukemia Bruton-type agammaglobulinemia cutaneous lupus erythematosus lung carcinoma malignant ependymoma malignant pancreatic neoplasm pancreatic ductal adenocarcinoma periodontitis tuberculosis breast cancer chronic kidney disease lung adenocarcinoma lymphoplasmacytic lymphoma pancreatic intraductal papillary-mucinous neoplasm psoriasis B-cell chronic lymphocytic leukemia Bruton-type agammaglobulinemia cutaneous lupus erythematosus lung carcinoma malignant ependymoma malignant pancreatic neoplasm pancreatic ductal adenocarcinoma periodontitis tuberculosis breast cancer chronic kidney disease lung adenocarcinoma lymphoplasmacytic lymphoma malignant glioma MALT lymphoma pancreatic intraductal papillary-mucinous carcinoma pituitary cancer ulcerative colitis breast carcinoma common variable immunodeficiency lung cancer malignant colon neoplasm malignant mesothelioma osteosarcoma
A, B, C, D, E, A, B, C, D, E, F, G, H, J [auth K], K [auth L]	: P01871	autosomal recessive agammaglobulinemia 1 agammaglobulinemia periodontitis Sjogren syndrome acute myeloid leukemia cutaneous lupus erythematosus interstitial cystitis lung carcinoma medulloblastoma ovarian cancer plasma cell myeloma tuberculosis breast cancer esophageal adenocarcinoma lung adenocarcinoma autosomal recessive agammaglobulinemia 1 agammaglobulinemia periodontitis Sjogren syndrome acute myeloid leukemia cutaneous lupus erythematosus interstitial cystitis lung carcinoma medulloblastoma ovarian cancer plasma cell myeloma tuberculosis breast cancer esophageal adenocarcinoma lung adenocarcinoma malignant ependymoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm sinusitis ulcerative colitis autosomal agammaglobulinemia Bruton-type agammaglobulinemia Hypogammaglobulinemia lung cancer malignant pancreatic neoplasm osteosarcoma

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.