3FQ4 | pdb_00003fq4

Crystal structure of the Calx-beta domain of integrin beta4

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d3fq4b1	All beta proteins	Immunoglobulin-like beta-sandwich	CalX-like	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3fq4b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3fq4a1	All beta proteins	Immunoglobulin-like beta-sandwich	CalX-like	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3fq4a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	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)
B	SCOP2B Superfamily	CalX-like	8078926	3002060	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CalX-like	8078926	3002060	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)
B	NUDIX	e3fq4B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)
A	Calx-beta	e3fq4A1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: FAD-dependent thiol oxidase	T: FAD-dependent thiol oxidase	F: Calx-beta	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.60.40.2030	Mainly Beta	Sandwich	Immunoglobulin-like	CalX-beta domain	CATH (4.3.0)
A	2.60.40.2030	Mainly Beta	Sandwich	Immunoglobulin-like	CalX-beta domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF03160	Calx-beta domain (Calx-beta)	Calx-beta domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Integrin beta-4	cell adhesion molecule binding protein-containing complex binding protein binding binding integrin binding signaling receptor binding G protein-coupled receptor binding cation binding ion binding metal ion binding small molecule binding	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process catabolic process autophagy metabolic process process utilizing autophagic mechanism cellular response to stimulus regulation of biological process integrin-mediated signaling pathway regulation of cellular process cell surface receptor signaling pathway response to stimulus cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process catabolic process autophagy metabolic process process utilizing autophagic mechanism cellular response to stimulus regulation of biological process integrin-mediated signaling pathway regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation cell communication signal transduction multicellular organismal process cellular developmental process peripheral nervous system axon ensheathment cellular component assembly involved in morphogenesis cell development glial cell development myelin assembly cellular component organization cellular component biogenesis multicellular organism development neurogenesis cellular anatomical entity morphogenesis cellular component assembly gliogenesis axon ensheathment ensheathment of neurons cell differentiation anatomical structure development myelination in peripheral nervous system cellular component organization or biogenesis Schwann cell differentiation system development developmental process peripheral nervous system development nervous system development peripheral nervous system myelin formation myelination anatomical structure morphogenesis Schwann cell development glial cell differentiation anatomical structure formation involved in morphogenesis cell junction organization cell junction assembly cell-substrate junction assembly cell-substrate junction organization hemidesmosome assembly cell adhesion mediated by integrin cell migration cell motility nail development limb development appendage development filopodium assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cell projection assembly response to stress response to wounding formation of primary germ layer mesodermal cell differentiation mesoderm morphogenesis embryonic morphogenesis tissue development embryo development gastrulation tissue morphogenesis mesoderm formation mesoderm development cell-cell adhesion skin development skin morphogenesis animal organ development animal organ morphogenesis trophoblast cell migration multi-multicellular organism process reproductive process ameboidal-type cell migration female pregnancy embryo implantation multi-organism reproductive process	cellular anatomical structure cell junction anchoring junction focal adhesion cell-substrate junction membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure cell junction anchoring junction focal adhesion cell-substrate junction membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle organelle lumen organelle membraneless organelle nuclear lumen hemidesmosome nuclear membrane membrane endomembrane system organelle envelope nuclear envelope organelle membrane basement membrane cell periphery extracellular matrix external encapsulating structure basal part of cell plasma membrane basal plasma membrane plasma membrane region extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space vesicle extracellular membrane-bounded organelle cell surface cell leading edge protein-containing complex plasma membrane protein complex membrane protein complex receptor complex integrin complex plasma membrane signaling receptor complex protein complex involved in cell adhesion

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR033760	Integrin beta N-terminal	Domain
A, B	IPR015812	Integrin beta subunit	Family
A, B	IPR036349	Integrin beta tail domain superfamily	Homologous Superfamily
A, B	IPR057243	Integrins beta, I-EGF domain, conserved site	Conserved Site
A, B	IPR002369	Integrin beta subunit, VWA domain	Domain
A, B	IPR016201	PSI domain	Domain
A, B	IPR040622	Integrin beta, epidermal growth factor-like domain 1	Domain
A, B	IPR000742	EGF-like domain	Domain
A, B	IPR012896	Integrin beta subunit, tail	Domain
A, B	IPR003961	Fibronectin type III	Domain
A, B	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
A, B	IPR003644	Na-Ca exchanger/integrin-beta4	Domain
A, B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, B	IPR038081	CalX-like domain superfamily	Homologous Superfamily
A, B	IPR012013	Integrin beta-4 subunit	Family
A, B	IPR036116	Fibronectin type III superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P16144	junctional epidermolysis bullosa epidermolysis bullosa junctional epidermolysis bullosa with pyloric atresia non-small cell lung carcinoma epidermolysis bullosa simplex pyloric atresia junctional epidermolysis bullosa, non-Herlitz type salivary gland adenoid cystic carcinoma Gliosis localized epidermolysis bullosa simplex adenoid cystic carcinoma ectodermal dysplasia syndrome epidermolysis bullosa simplex with pyloric atresia generalized junctional epidermolysis bullosa non-Herlitz type lung adenocarcinoma junctional epidermolysis bullosa epidermolysis bullosa junctional epidermolysis bullosa with pyloric atresia non-small cell lung carcinoma epidermolysis bullosa simplex pyloric atresia junctional epidermolysis bullosa, non-Herlitz type salivary gland adenoid cystic carcinoma Gliosis localized epidermolysis bullosa simplex adenoid cystic carcinoma ectodermal dysplasia syndrome epidermolysis bullosa simplex with pyloric atresia generalized junctional epidermolysis bullosa non-Herlitz type lung adenocarcinoma malignant ependymoma aplasia cutis congenita Clouston syndrome pilocytic astrocytoma glioblastoma junctional epidermolysis bullosa inversa large cell medulloblastoma lung cancer amelogenesis imperfecta malignant glioma astrocytic tumor malignant pancreatic neoplasm Down syndrome osteosarcoma psoriasis salivary gland cancer interstitial cystitis lung carcinoma malignant mesothelioma medulloblastoma 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.