7C61

Crystal structure of 5-HT1B-BRIL and SRP2070_Fab complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth L]	d7c61l2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A [auth L]	d7c61l1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth A]	SCOP2B Superfamily	G protein-coupled receptor-like	8091186	3000473	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Cytochromes	8057879	3001526	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	G protein-coupled receptor-like	8091186	3000473	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 [auth L]	C1-set_4	e7c61L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
A [auth L]	V-set	e7c61L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
B [auth H]	V-set_8	e7c61H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
B [auth H]	C1-set_1	e7c61H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
C [auth A]	7tm_1_2	e7c61A1	A: alpha bundles	X: Family A G protein-coupled receptor-like (From Topology)	H: Family A G protein-coupled receptor-like (From Topology)	T: Family A G protein-coupled receptor-like	F: 7tm_1_2	ECOD (1.6)
C [auth A]	Cytochrom_B562_1	e7c61A2	A: alpha bundles	X: Four-helical up-and-down bundle	H: Cytochromes (From Topology)	T: Cytochromes	F: Cytochrom_B562_1	ECOD (1.6)

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 [auth L]	Fab SRP2070, anti- GPCRs	L-KAPPA	Mus musculus (house mouse)	IGKV5-4501, IGKJ501, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202445-0)
B [auth H]	Fab SRP2070, anti- GPCRs	VH-CH1	Mus musculus (house mouse)	IGHV1-8401, IGHJ201, IGHG2A01, IGHG2A02	V-DOMAIN VH, C-DOMAIN CH1, C-DOMAIN CH2	IG	FAB-GAMMA-1_KAPPA	IMGT (202445-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L]	Light Chain	IGKV5	Kappa	5-hydroxytryptamine receptor 1b,soluble cytochrome b562,5-hydroxytryptamine receptor 1b	SAbDab (2024-11-15)
B [auth H]	Heavy Chain	IGHV1	-	5-hydroxytryptamine receptor 1b,soluble cytochrome b562,5-hydroxytryptamine receptor 1b	SAbDab (2024-11-15)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A]	PF07361	Cytochrome b562 (Cytochrom_B562)	Cytochrome b562	-	Family
C [auth A]	PF00001	7 transmembrane receptor (rhodopsin family) (7tm_1)	7 transmembrane receptor (rhodopsin family)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L]	IGG LIGHT CHAIN	-	-	-
B [auth H]	IGG HEAVY CHAIN	-	-	-
C [auth A]	5-hydroxytryptamine receptor 1B,Soluble cytochrome b562,5-hydroxytryptamine receptor 1B	cation binding binding ion binding serotonin binding organic cyclic compound binding amine binding heterocyclic compound binding small molecule binding neurotransmitter receptor activity molecular transducer activity signaling receptor activity G protein-coupled amine receptor activity G protein-coupled serotonin receptor activity G protein-coupled receptor activity cation binding binding ion binding serotonin binding organic cyclic compound binding amine binding heterocyclic compound binding small molecule binding neurotransmitter receptor activity molecular transducer activity signaling receptor activity G protein-coupled amine receptor activity G protein-coupled serotonin receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity voltage-gated calcium channel activity involved in regulation of presynaptic cytosolic calcium levels monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity voltage-gated calcium channel activity involved in regulation of cytosolic calcium levels inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity tetrapyrrole binding heme binding electron transfer activity transition metal ion binding iron ion binding metal ion binding	multicellular organismal process tissue remodeling bone remodeling cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation adenylate cyclase-inhibiting serotonin receptor signaling pathway G protein-coupled serotonin receptor signaling pathway cell communication adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway multicellular organismal process tissue remodeling bone remodeling cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation adenylate cyclase-inhibiting serotonin receptor signaling pathway G protein-coupled serotonin receptor signaling pathway cell communication adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway cellular process signal transduction monoamine transport regulation of localization nitrogen compound transport transport negative regulation of monoatomic ion transport negative regulation of biological process negative regulation of transport organic hydroxy compound transport localization secretion by cell negative regulation of secretion regulation of secretion by cell signal release negative regulation of cellular process monoatomic ion transport negative regulation of secretion by cell serotonin secretion negative regulation of serotonin secretion regulation of transport secretion regulation of monoatomic ion transport cell-cell signaling export from cell serotonin transport regulation of serotonin secretion establishment of localization regulation of secretion trans-synaptic signaling regulation of signaling modulation of chemical synaptic transmission presynaptic modulation of chemical synaptic transmission chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication regulation of catecholamine secretion dopamine transport catecholamine transport dopamine secretion catecholamine secretion amine transport regulation of amine transport regulation of dopamine secretion regulation of tube diameter system process regulation of tube size circulatory system process vascular process in circulatory system blood vessel diameter maintenance regulation of biological quality vasoconstriction blood circulation regulation of anatomical structure size regulation of vascular associated smooth muscle cell proliferation cell population proliferation positive regulation of vascular associated smooth muscle cell proliferation regulation of smooth muscle cell proliferation positive regulation of cell population proliferation positive regulation of biological process smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation vascular associated smooth muscle cell proliferation positive regulation of cellular process response to corticosteroid response to lipid response to hormone response to steroid hormone response to chemical response to endogenous stimulus response to mineralocorticoid response to organic cyclic compound cellular response to nitrogen compound cellular response to chemical stimulus response to nitrogen compound cellular response to alkaloid response to alkaloid negative regulation of amino acid transport negative regulation of amine transport gamma-aminobutyric acid transport negative regulation of gamma-aminobutyric acid secretion regulation of amino acid transport organic anion transport gamma-aminobutyric acid secretion carboxylic acid transport regulation of gamma-aminobutyric acid secretion acid secretion organic acid transport amino acid transport negative regulation of organic acid transport regulation of organic acid transport regulation of behavior behavior regulation of multicellular organismal process drinking behavior feeding behavior response to alcohol response to oxygen-containing compound response to ethanol negative regulation of signaling synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic negative regulation of synaptic transmission negative regulation of cell communication negative regulation of synaptic transmission, glutamatergic cellular response to xenobiotic stimulus response to xenobiotic stimulus negative regulation of synaptic transmission, GABAergic synaptic transmission, GABAergic regulation of synaptic transmission, GABAergic cellular localization regulated exocytosis synaptic vesicle cycle synaptic vesicle exocytosis vesicle-mediated transport vesicle-mediated transport in synapse regulation of regulated secretory pathway establishment of localization in cell neurotransmitter secretion regulation of neurotransmitter transport regulation of synaptic vesicle exocytosis neurotransmitter transport regulation of vesicle-mediated transport signal release from synapse exocytosis regulation of neurotransmitter secretion regulation of exocytosis response to cocaine cellular response to temperature stimulus response to abiotic stimulus response to temperature stimulus negative adaptation of signaling pathway import into cell receptor internalization desensitization of G protein-coupled receptor signaling pathway regulation of signal transduction negative regulation of G protein-coupled receptor signaling pathway regulation of G protein-coupled receptor signaling pathway G protein-coupled receptor internalization negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus adaptation of signaling pathway receptor-mediated endocytosis endocytosis G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger electron transport chain metabolic process generation of precursor metabolites and energy	protein-containing complex G protein-coupled serotonin receptor complex receptor complex cellular anatomical structure serotonergic synapse synapse cell junction cell periphery plasma membrane membrane presynapse presynaptic membrane plasma membrane region synaptic membrane protein-containing complex G protein-coupled serotonin receptor complex receptor complex cellular anatomical structure serotonergic synapse synapse cell junction cell periphery plasma membrane membrane presynapse presynaptic membrane plasma membrane region synaptic membrane somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection axon axon terminus distal axon calyx of Held neuron projection terminus membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle endoplasmic reticulum cytoplasm intracellular membrane-bounded organelle endomembrane system periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A]	IPR002147	5-Hydroxytryptamine 1B receptor	Family
C [auth A]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
C [auth A]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
C [auth A]	IPR002231	5-hydroxytryptamine receptor family	Family
C [auth A]	IPR010980	Cytochrome c/b562	Homologous Superfamily
C [auth A]	IPR009155	Cytochrome b562	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth A]	Pharos: P28222	visual epilepsy major depressive disorder schizoaffective disorder cocaine abuse migraine disorder amphetamine abuse cocaine dependence Generalized seizures hypotensive disorder osteosarcoma autism schizophreniform disorder depressive disorder large cell medulloblastoma opiate dependence visual epilepsy major depressive disorder schizoaffective disorder cocaine abuse migraine disorder amphetamine abuse cocaine dependence Generalized seizures hypotensive disorder osteosarcoma autism schizophreniform disorder depressive disorder large cell medulloblastoma opiate dependence bipolar disorder

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
C [auth A]	OPM	Transmembrane	Alpha-helical polytopic	Rhodopsin-like receptors and pumps	G-protein coupled receptors, family A

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
C [auth A]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
C [auth A]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
C [auth A]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	G Protein-Coupled Receptors: Class A	5-HT_1B serotonin receptor with SRP2070_Fab complex

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.