4JVW | pdb_00004jvw

IgM C4-domain from mouse

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d4jvwd_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d4jvwc_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d4jvwb_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d4jvwa_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	V-set	e4jvwD1	A: a/b three-layered sandwiches	X: Insertion subdomain in DsbA-like	H: Insertion subdomain in DsbA-like	T: Insertion subdomain in DsbA-like	F: V-set	ECOD (v294.1)
C	V-set	e4jvwC1	A: a/b three-layered sandwiches	X: Insertion subdomain in DsbA-like	H: Insertion subdomain in DsbA-like	T: Insertion subdomain in DsbA-like	F: V-set	ECOD (v294.1)
B	V-set	e4jvwB1	A: a/b three-layered sandwiches	X: Insertion subdomain in DsbA-like	H: Insertion subdomain in DsbA-like	T: Insertion subdomain in DsbA-like	F: V-set	ECOD (v294.1)
A	V-set	e4jvwA1	A: a/b three-layered sandwiches	X: Insertion subdomain in DsbA-like	H: Insertion subdomain in DsbA-like	T: Insertion subdomain in DsbA-like	F: V-set	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
A	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, B, C, D	IG MU CHAIN C REGION SECRETED FORM	CH4	Mus musculus (house mouse)	IGHM01, IGHM02	C-DOMAIN CH4	IG	(CH4_CH4)	IMGT (202615-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	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
A, B, C, D	Ig mu chain C region secreted form	protein binding binding signaling receptor binding immunoglobulin receptor binding antigen binding identical protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity	regulation of biological process response to stimulus immune response biological regulation positive regulation of biological process positive regulation of response to stimulus positive regulation of immune response regulation of response to stimulus immune system process regulation of immune response regulation of immune system process positive regulation of immune system process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity regulation of biological process response to stimulus immune response biological regulation positive regulation of biological process positive regulation of response to stimulus positive regulation of immune response regulation of response to stimulus immune system process regulation of immune response regulation of immune system process positive regulation of immune system process adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity B cell mediated immunity leukocyte mediated immunity immunoglobulin mediated immune response adaptive immune response immune effector process cellular response to stimulus immune response-regulating cell surface receptor signaling pathway regulation of cellular process signaling cell communication immune response-activating signaling pathway immune response-regulating signaling pathway signal transduction cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway cellular process antigen receptor-mediated signaling pathway activation of immune response humoral immune response complement activation humoral immune response mediated by circulating immunoglobulin complement activation, classical pathway 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 developmental process anatomical structure morphogenesis regulation of developmental process anatomical structure development cell morphogenesis regulation of cell morphogenesis regulation of anatomical structure morphogenesis innate immune response multicellular organismal process immunoglobulin production cellular developmental process immunoglobulin production involved in immunoglobulin-mediated immune response cell development mononuclear cell differentiation B cell affinity maturation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation production of molecular mediator of immune response hemopoiesis B cell activation cell activation gene expression macromolecule biosynthetic process biosynthetic process peripheral B cell selection B cell selection metabolic process macromolecule metabolic process leukocyte differentiation positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette positive regulation of cellular process regulation of signaling positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade regulation of cell communication positive regulation of signaling regulation of biosynthetic process regulation of immune effector process regulation of macromolecule metabolic process regulation of gene expression regulation of immunoglobulin production regulation of macromolecule biosynthetic process regulation of production of molecular mediator of immune response regulation of metabolic process defense response to Gram-negative bacterium regulation of leukocyte activation regulation of cell activation positive regulation of lymphocyte activation positive regulation of cell activation regulation of B cell activation positive regulation of leukocyte activation regulation of multicellular organismal process positive regulation of B cell activation positive regulation of multicellular organismal process regulation of lymphocyte activation antigen processing and presentation positive regulation of cell population proliferation positive regulation of B cell proliferation leukocyte proliferation regulation of B cell proliferation lymphocyte proliferation positive regulation of mononuclear cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation positive regulation of lymphocyte proliferation B cell proliferation regulation of cell population proliferation mononuclear cell proliferation positive regulation of leukocyte proliferation regulation of mononuclear cell proliferation immature B cell differentiation pre-B cell allelic exclusion pre-B cell differentiation cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport vesicle-mediated transport between endosomal compartments localization intercellular transport early endosome to late endosome transport establishment of localization in cell regulation of localization import into cell positive regulation of cellular component organization regulation of cellular component organization regulation of transport regulation of vesicle-mediated transport cellular component organization positive regulation of endocytosis positive regulation of transport cellular component organization or biogenesis endocytosis regulation of endocytosis	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane protein-containing complex IgM immunoglobulin complex IgM immunoglobulin complex, circulating extracellular region extracellular protein-containing complex pentameric IgM immunoglobulin complex immunoglobulin complex, circulating cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane protein-containing complex IgM immunoglobulin complex IgM immunoglobulin complex, circulating extracellular region extracellular protein-containing complex pentameric IgM immunoglobulin complex immunoglobulin complex, circulating immunoglobulin complex plasma membrane protein complex membrane protein complex B cell receptor complex plasma membrane signaling receptor complex signaling receptor complex intracellular anatomical structure cytoplasm hexameric IgM immunoglobulin complex IgM B cell receptor complex perinuclear region of cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR003597	Immunoglobulin C1-set	Domain
A, B, C, D	IPR003006	Immunoglobulin/major histocompatibility complex, conserved site	Conserved Site
A, B, C, D	IPR050380	Immune Recognition and Response Modulators	Family
A, B, C, D	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B, C, D	IPR007110	Immunoglobulin-like domain	Domain

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.