6KO5 | pdb_00006ko5

Complex structure of Ghrelin receptor with Fab

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Class A (rhodopsin) G protein-coupled receptor-like	8100351	4001858	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	G protein-coupled receptor-like	8100352	3000473	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	Cytochromes	8057879	3001526	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	7tm_1_3	e6ko5A1	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_3	ECOD (1.6)
A	Cytochrom_B562_1	e6ko5A2	A: alpha bundles	X: Four-helical up-and-down bundle	H: Cytochromes (From Topology)	T: Cytochromes	F: Cytochrom_B562_1	ECOD (1.6)
B [auth H]	V-set_8	e6ko5H2	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	e6ko5H1	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 L]	C1-set_4	e6ko5L2	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)
C [auth L]	V-set	e6ko5L1	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.120.10	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	Cytochrome c/b562	CATH (utative)
A	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (utative)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

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	CHIMERA OF SOLUBLE CYTOCHROME B562 AND GROWTH HORMONE,H	(LINKER-LINKER-LINKER)	-	-	-	TR	(LINKER-LINKER-LINKER)	IMGT (202514-0)
B [auth H]	-	VH-CH1	-	IGHV1-1501, IGHJ201, IGHG2A01, IGHG2A02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-2A_KAPPA	IMGT (202514-0)
C [auth L]	-	L-KAPPA	-	IGKV8-2101, IGKJ101, IGKJ201, IGKC01, IGKC*02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-2A_KAPPA	IMGT (202514-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV1	-	chimera of soluble cytochrome b562 and growth hormonesecretagogue receptor type 1	SAbDab (2025-04-18)
C [auth L]	Light Chain	IGKV8	Kappa	chimera of soluble cytochrome b562 and growth hormonesecretagogue receptor type 1	SAbDab (2025-04-18)

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	Chimera of Soluble cytochrome b562 and Growth hormone secretagogue receptor type 1	molecular transducer activity growth hormone secretagogue receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity amide binding binding peptide hormone binding hormone binding identical protein binding protein binding growth hormone-releasing hormone receptor activity tetrapyrrole binding heme binding molecular transducer activity growth hormone secretagogue receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity amide binding binding peptide hormone binding hormone binding identical protein binding protein binding growth hormone-releasing hormone receptor activity tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding	multicellular organismal process system process regulation of biological process digestive system process regulation of system process regulation of gastric motility biological regulation regulation of digestive system process digestion gastric motility regulation of multicellular organismal process cellular response to stimulus cellular response to nitrogen compound response to stimulus multicellular organismal process system process regulation of biological process digestive system process regulation of system process regulation of gastric motility biological regulation regulation of digestive system process digestion gastric motility regulation of multicellular organismal process cellular response to stimulus cellular response to nitrogen compound response to stimulus response to endogenous stimulus response to peptide hormone cellular response to peptide hormone stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular process cellular response to insulin-like growth factor stimulus cellular response to hormone stimulus developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of tumor necrosis factor production regulation of cellular process negative regulation of biological process negative regulation of tumor necrosis factor production cytokine production regulation of cytokine production negative regulation of cellular process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of metabolic process tumor necrosis factor superfamily cytokine production negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production regulation of gene expression negative regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process interleukin-6 production regulation of interleukin-6 production negative regulation of interleukin-6 production negative regulation of behavior negative regulation of locomotion locomotion involved in locomotory behavior behavior regulation of behavior negative regulation of locomotion involved in locomotory behavior locomotory behavior regulation of locomotion regulation of locomotion involved in locomotory behavior locomotion regulation of localization regulation of hormone secretion nitrogen compound transport regulation of peptide secretion signaling transport hormone secretion cell communication localization peptide secretion regulation of secretion by cell secretion by cell amide transport signal release regulation of biological quality regulation of peptide hormone secretion regulation of signaling growth hormone secretion regulation of transport secretion regulation of hormone levels regulation of growth hormone secretion regulation of peptide transport export from cell cell-cell signaling establishment of localization regulation of secretion peptide transport peptide hormone secretion regulation of cell communication hormone transport intestinal motility positive regulation of small intestinal transit positive regulation of biological process positive regulation of digestive system process positive regulation of multicellular organismal process small intestinal transit regulation of small intestinal transit cell surface receptor signaling pathway insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway signal transduction enzyme-linked receptor protein signaling pathway positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction positive regulation of response to stimulus positive regulation of insulin-like growth factor receptor signaling pathway regulation of insulin-like growth factor receptor signaling pathway positive regulation of cellular process regulation of response to stimulus positive regulation of signaling trans-synaptic signaling modulation of chemical synaptic transmission chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling postsynaptic modulation of chemical synaptic transmission response to ketone response to lipid response to glucocorticoid response to corticosteroid response to steroid hormone response to dexamethasone cell population proliferation positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of vascular endothelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation positive regulation of endothelial cell proliferation regulation of epithelial cell proliferation vascular endothelial cell proliferation epithelial cell proliferation positive regulation of vascular endothelial cell proliferation response to growth hormone response to thyroid hormone cellular response to thyroid hormone stimulus response to acid chemical response to L-glutamate response to amino acid regulation of cellular component organization cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development regulation of synapse structure or activity regulation of synapse assembly synapse organization cellular component organization or biogenesis system development nervous system development regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization cell junction organization synapse assembly response to gonadotropin response to follicle-stimulating hormone postsynapse organization regulation of postsynapse organization regulation of hindgut contraction muscle contraction muscle system process regulation of muscle system process hindgut contraction smooth muscle contraction regulation of smooth muscle contraction regulation of muscle contraction adult feeding behavior adult behavior feeding behavior actin polymerization or depolymerization organelle organization actin cytoskeleton organization actin filament organization actin filament-based process supramolecular fiber organization cytoskeleton organization positive regulation of smooth muscle contraction intestine smooth muscle contraction regulation of gastro-intestinal system smooth muscle contraction positive regulation of small intestine smooth muscle contraction regulation of small intestine smooth muscle contraction small intestine smooth muscle contraction gastro-intestinal system smooth muscle contraction phasic smooth muscle contraction positive regulation of gastro-intestinal system smooth muscle contraction positive regulation of muscle contraction leukocyte apoptotic process regulation of programmed cell death macrophage apoptotic process negative regulation of leukocyte apoptotic process myeloid cell apoptotic process regulation of leukocyte apoptotic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of macrophage apoptotic process cell death negative regulation of apoptotic process regulation of macrophage apoptotic process inflammatory cell apoptotic process negative regulation of myeloid cell apoptotic process apoptotic process regulation of myeloid cell apoptotic process programmed cell death response to nutrient levels regulation of response to nutrient levels negative regulation of response to food negative regulation of response to nutrient levels negative regulation of response to stimulus negative regulation of appetite regulation of response to food response to food regulation of appetite oxoacid metabolic process ketone metabolic process regulation of lipid metabolic process organic acid metabolic process regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process positive regulation of fatty acid metabolic process fatty acid metabolic process carboxylic acid metabolic process primary metabolic process regulation of ketone metabolic process regulation of fatty acid metabolic process monocarboxylic acid metabolic process positive regulation of small molecule metabolic process lipid metabolic process hormone-mediated signaling pathway regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response defense response response to external stimulus regulation of inflammatory response response to stress negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response interleukin-1 production regulation of interleukin-1 beta production negative regulation of interleukin-1 beta production negative regulation of interleukin-1 production regulation of interleukin-1 production interleukin-1 beta production biological process involved in interspecies interaction between organisms response to other organism cellular response to lipopolysaccharide cellular response to molecule of bacterial origin response to lipopolysaccharide response to biotic stimulus cellular response to biotic stimulus response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin positive regulation of appetite positive regulation of response to food positive regulation of response to nutrient levels protein localization negative regulation of protein transport establishment of protein localization negative regulation of transport negative regulation of secretion cellular macromolecule localization negative regulation of hormone secretion negative regulation of secretion by cell negative regulation of peptide hormone secretion establishment of protein localization to extracellular region negative regulation of establishment of protein localization protein secretion regulation of protein secretion negative regulation of protein secretion cellular localization regulation of protein localization negative regulation of signaling negative regulation of cell communication protein localization to extracellular region negative regulation of peptide secretion negative regulation of protein localization regulation of establishment of protein localization regulation of protein transport negative regulation of insulin secretion protein transport regulation of cellular localization regulation of insulin secretion macromolecule localization insulin secretion ghrelin secretion protein localization to synapse regulation of neurotransmitter receptor localization to postsynaptic specialization membrane regulation of protein localization to synapse neurotransmitter receptor localization to postsynaptic specialization membrane regulation of protein localization to membrane regulation of receptor localization to synapse protein localization to postsynaptic specialization membrane protein localization to cell periphery protein localization to postsynaptic membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane protein-containing complex localization regulation of postsynaptic membrane neurotransmitter receptor levels protein localization to organelle protein localization to postsynapse protein localization to cell junction receptor localization to synapse multi-multicellular organism process placenta development maternal process involved in female pregnancy animal organ development tissue development maternal placenta development female pregnancy multi-organism reproductive process decidualization learning or memory nervous system process cognition regulation of multicellular organism growth regulation of growth regulation of developmental growth regulation of developmental process developmental growth growth positive regulation of multicellular organism growth positive regulation of developmental process multicellular organism growth positive regulation of growth positive regulation of developmental growth regulation of sprouting angiogenesis angiogenesis regulation of vasculature development tube morphogenesis positive regulation of sprouting angiogenesis regulation of anatomical structure morphogenesis blood vessel development regulation of multicellular organismal development blood vessel morphogenesis tube development positive regulation of angiogenesis sprouting angiogenesis vasculature development circulatory system development anatomical structure morphogenesis positive regulation of vasculature development regulation of angiogenesis anatomical structure formation involved in morphogenesis regulation of eating behavior positive regulation of feeding behavior eating behavior positive regulation of eating behavior positive regulation of behavior regulation of feeding behavior response to insulin cellular response to insulin stimulus G protein-coupled receptor signaling pathway monoamine transport negative regulation of amine transport regulation of catecholamine secretion organic hydroxy compound transport catecholamine transport negative regulation of norepinephrine secretion norepinephrine transport negative regulation of catecholamine secretion organic cation transport catecholamine secretion amine transport norepinephrine secretion regulation of amine transport regulation of norepinephrine secretion transmission of nerve impulse regulation of nervous system process regulation of transmission of nerve impulse response to estradiol electron transport chain generation of precursor metabolites and energy	cellular anatomical structure synapse cell junction glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection postsynapse cell periphery membrane plasma membrane plasma membrane region synaptic membrane cell surface cellular anatomical structure synapse cell junction glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection postsynapse cell periphery membrane plasma membrane plasma membrane region synaptic membrane cell surface membrane microdomain membrane raft Schaffer collateral - CA1 synapse periplasmic space
B [auth H]	Fab7881 Heavy Chain	-	-	-
C [auth L]	Fab7881 Light Chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
A	IPR003905	Growth hormone secretagogue receptor/motilin receptor	Family
A	IPR010980	Cytochrome c/b562	Homologous Superfamily
A	IPR009155	Cytochrome b562	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q92847	alcohol abuse short stature due to partial GHR deficiency short stature due to GHSR deficiency Cancer cachexia lung carcinoma osteogenesis imperfecta digestive system cancer heart disease

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
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
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	G Protein-Coupled Receptors: Class A	Ghrelin receptor with Fab

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.