8S4D | pdb_00008s4d

Crystal structure of a peptidergic GPCR in complex with a small synthetic G protein-biased agonist

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Cytochromes	8057879	3001526	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	G protein-coupled receptor-like	8091204	3000473	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07361	Cytochrome b562 (Cytochrom_B562)	Cytochrome b562	-	Family
A	PF00001	7 transmembrane receptor (rhodopsin family) (7tm_1)	7 transmembrane receptor (rhodopsin family)	This family contains, amongst other G-protein-coupled receptors (GCPRs), members of the opsin family, which have been considered to be typical members of the rhodopsin superfamily. They share several motifs, mainly the seven transmembrane helices, GC ...	This family contains, amongst other G-protein-coupled receptors (GCPRs), members of the opsin family, which have been considered to be typical members of the rhodopsin superfamily. They share several motifs, mainly the seven transmembrane helices, GCPRs of the rhodopsin superfamily. All opsins bind a chromophore, such as 11-cis-retinal. The function of most opsins other than the photoisomerases is split into two steps: light absorption and G-protein activation. Photoisomerases, on the other hand, are not coupled to G-proteins - they are thought to generate and supply the chromophore that is used by visual opsins [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Apelin receptor,Soluble cytochrome b562	binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding peptide receptor activity molecular transducer activity G protein-coupled receptor activity G protein-coupled peptide receptor activity binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding peptide receptor activity molecular transducer activity G protein-coupled receptor activity G protein-coupled peptide receptor activity signaling receptor activity transmembrane signaling receptor activity apelin receptor activity	electron transport chain metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication apelin receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction electron transport chain metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication apelin receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development atrioventricular valve development heart valve development cardiac chamber morphogenesis heart morphogenesis ventricular septum development anatomical structure morphogenesis cardiac septum development cardiac septum morphogenesis ventricular septum morphogenesis cardiac chamber development animal organ morphogenesis cardiac ventricle development regulation of body fluid levels regulation of biological quality blood vessel morphogenesis tube development angiogenesis vasculature development tube morphogenesis anatomical structure formation involved in morphogenesis blood vessel development regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis positive regulation of cell population proliferation endothelial cell proliferation positive regulation of biological process positive regulation of endothelial cell proliferation epithelial cell proliferation positive regulation of cellular process positive regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis cell population proliferation blood vessel endothelial cell proliferation involved in sprouting angiogenesis positive regulation of epithelial cell proliferation sprouting angiogenesis regulation of endothelial cell proliferation regulation of cell population proliferation regulation of epithelial cell proliferation regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process embryonic morphogenesis embryo development gastrulation mesenchyme morphogenesis endocardial cushion morphogenesis mesenchyme development tissue development endocardial cushion formation tissue morphogenesis endocardial cushion development artery development aorta development regulation of localization negative adaptation of signaling pathway regulation of G protein-coupled receptor internalization receptor internalization negative regulation of biological process regulation of signal transduction regulation of receptor internalization vesicle-mediated transport negative regulation of G protein-coupled receptor signaling pathway localization positive regulation of endocytosis regulation of G protein-coupled receptor signaling pathway positive regulation of receptor-mediated endocytosis positive regulation of G protein-coupled receptor internalization establishment of localization positive regulation of receptor internalization regulation of response to stimulus adaptation of signaling pathway receptor-mediated endocytosis import into cell regulation of cellular component organization positive regulation of cellular component organization transport negative regulation of signaling desensitization of G protein-coupled receptor signaling pathway negative regulation of cell communication cellular component organization negative regulation of cellular process cellular component organization or biogenesis regulation of endocytosis G protein-coupled receptor internalization regulation of signaling regulation of transport negative regulation of response to stimulus regulation of receptor-mediated endocytosis regulation of vesicle-mediated transport negative regulation of signal transduction positive regulation of transport regulation of cell communication endocytosis cellular developmental process vasculogenesis cell differentiation regulation of developmental process regulation of vasculature development positive regulation of developmental process regulation of multicellular organismal process regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway venous blood vessel development regulation of calcium ion transport positive regulation of cation transmembrane transport positive regulation of calcium ion transport intracellular calcium ion homeostasis calcium ion transport positive regulation of monoatomic ion transport positive regulation of monoatomic ion transmembrane transport monoatomic cation homeostasis monoatomic cation transport intracellular monoatomic ion homeostasis regulation of release of sequestered calcium ion into cytosol regulation of monoatomic ion transport inorganic ion transmembrane transport inorganic cation transmembrane transport maintenance of location transmembrane transport release of sequestered calcium ion into cytosol regulation of transmembrane transport chemical homeostasis cellular localization inorganic ion homeostasis homeostatic process monoatomic ion transmembrane transport calcium ion homeostasis regulation of monoatomic ion transmembrane transport negative regulation of sequestering of calcium ion metal ion transport maintenance of location in cell regulation of calcium ion transmembrane transport monoatomic cation transmembrane transport intracellular monoatomic cation homeostasis monoatomic ion homeostasis positive regulation of calcium ion transmembrane transport positive regulation of transmembrane transport monoatomic ion transport intracellular chemical homeostasis positive regulation of release of sequestered calcium ion into cytosol regulation of metal ion transport regulation of sequestering of calcium ion calcium ion transmembrane import into cytosol sequestering of calcium ion cellular homeostasis regulation of monoatomic cation transmembrane transport calcium ion transmembrane transport negative regulation of intracellular signal transduction intracellular signal transduction cAMP-mediated signaling regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cAMP-mediated signaling regulation of cAMP-mediated signaling adult heart development negative regulation of metabolic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of macromolecule metabolic process smooth muscle cell differentiation muscle cell differentiation muscle structure development vascular associated smooth muscle cell differentiation coronary vasculature development gap junction assembly regulation of gap junction assembly regulation of cellular component biogenesis cellular component biogenesis regulation of cell junction assembly cell junction organization cellular component assembly cell junction assembly cell-cell junction assembly cell-cell junction organization pattern specification process embryonic heart tube development embryonic heart tube morphogenesis heart looping determination of bilateral symmetry epithelial tube morphogenesis embryonic organ development determination of left/right symmetry specification of symmetry embryonic organ morphogenesis epithelium development morphogenesis of an epithelium determination of heart left/right asymmetry regionalization left/right pattern formation	cellular anatomical structure periplasmic space cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR010980	Cytochrome c/b562	Homologous Superfamily
A	IPR009155	Cytochrome b562	Family
A	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A	IPR003904	Apelin receptor	Family
A	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
A	IPR050119	C-C chemokine receptor type 1-9-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P35414	interstitial cystitis malignant glioma Pick disease malignant colon neoplasm medulloblastoma pilocytic astrocytoma malignant ependymoma ovarian cancer

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.