9YDR | pdb_00009ydr

Human delta opioid receptor complex with mini-Gi and agonist DADLE and allosteric modulator MIPS3983

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth G]	SCOP2B Superfamily	Transducin (heterotrimeric G protein), gamma chain	8070798	3001771	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)
D [auth N]	PAD_N	e9ydrN1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PAD_N	ECOD (v295.2)
C [auth G]	PKD_channel	e9ydrG1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PKD_channel	ECOD (v295.2)
B		e9ydrB1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F:	ECOD (v295.2)
A	FliD_C	e9ydrA1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: FliD_C	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth G]	PF00631	GGL domain (G-gamma)	GGL domain	G-protein gamma like domains (GGL) are found in the gamma subunit of the heterotrimeric G protein complex and in regulators of G protein signaling (RGS) proteins [1]. It is also found fused to an inactive Galpha in the Dictyostelium protein gbqA [2] ...	G-protein gamma like domains (GGL) are found in the gamma subunit of the heterotrimeric G protein complex and in regulators of G protein signaling (RGS) proteins [1]. It is also found fused to an inactive Galpha in the Dictyostelium protein gbqA [2]. G-gamma likely shares a common origin with the helical N-terminal unit of G-beta [2]. All organisms that posses a G-beta possess a G-gamma [2].	Domain
B	PF25391	G protein beta WD-40 repeat protein (WD40_Gbeta)	G protein beta WD-40 repeat protein	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth P]	DADLE	-	-	-
F [auth R]	OPRD1 isoform 1	G protein-coupled enkephalin receptor activity peptide receptor activity molecular transducer activity G protein-coupled opioid receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity G protein-coupled peptide receptor activity	regulation of biosynthetic process regulation of biological process regulation of cellular process negative regulation of metabolic process biological regulation negative regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of cellular process regulation of biosynthetic process regulation of biological process regulation of cellular process negative regulation of metabolic process biological regulation negative regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of cellular process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process negative regulation of macromolecule metabolic process regulation of cellular component organization negative regulation of cellular component organization protein-containing complex organization regulation of cellular component biogenesis negative regulation of protein-containing complex assembly cellular component organization cellular component biogenesis regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular component organization or biogenesis cellular response to stimulus cellular response to chemical stimulus response to stimulus response to chemical cellular response to toxic substance response to toxic substance regulation of mitochondrial membrane potential regulation of biological quality regulation of membrane potential response to decreased oxygen levels cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to stress response to hypoxia response to stress response to oxygen levels response to abiotic stimulus	cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle intracellular anatomical structure dense core granule intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle intracellular anatomical structure dense core granule intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle neuronal dense core vesicle
D [auth N]	Nanobody 35	-	-	-
C [auth G]	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	protein binding binding G-protein beta-subunit binding	cellular response to nitrogen compound cellular response to stimulus response to dopamine regulation of cellular process response to stimulus signaling cellular response to dopamine response to monoamine cell communication response to catecholamine adenylate cyclase-activating dopamine receptor signaling pathway cellular response to catecholamine stimulus signal transduction regulation of biological process cellular response to nitrogen compound cellular response to stimulus response to dopamine regulation of cellular process response to stimulus signaling cellular response to dopamine response to monoamine cell communication response to catecholamine adenylate cyclase-activating dopamine receptor signaling pathway cellular response to catecholamine stimulus signal transduction regulation of biological process G protein-coupled dopamine receptor signaling pathway biological regulation response to oxygen-containing compound response to nitrogen compound adenylate cyclase-activating G protein-coupled receptor signaling pathway cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to monoamine stimulus response to chemical adenylate cyclase-modulating G protein-coupled receptor signaling pathway cellular process G protein-coupled receptor signaling pathway response to ketone response to prostaglandin response to lipid response to endogenous stimulus response to alcohol cellular response to prostaglandin stimulus cellular response to endogenous stimulus cellular response to prostaglandin E stimulus cellular response to alcohol response to hormone cellular response to lipid response to prostaglandin E cellular response to ketone cellular response to hormone stimulus	cellular anatomical structure membrane protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cytoplasmic side of plasma membrane GTPase complex cellular anatomical structure membrane protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cytoplasmic side of plasma membrane GTPase complex extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle synapse cell junction
B	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	protein binding binding enzyme binding GTPase binding protein-containing complex binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity signaling receptor complex adaptor activity protein-macromolecule adaptor activity protein binding binding enzyme binding GTPase binding protein-containing complex binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity signaling receptor complex adaptor activity protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cellular process signal transduction cell communication response to ketone response to prostaglandin response to lipid response to endogenous stimulus response to alcohol cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cellular process signal transduction cell communication response to ketone response to prostaglandin response to lipid response to endogenous stimulus response to alcohol cellular response to prostaglandin stimulus response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to prostaglandin E stimulus cellular response to chemical stimulus cellular response to alcohol response to hormone response to chemical cellular response to lipid response to prostaglandin E cellular response to ketone cellular response to hormone stimulus small GTPase-mediated signal transduction Ras protein signal transduction intracellular signal transduction intracellular signaling cassette cellular response to nitrogen compound response to dopamine cellular response to dopamine response to monoamine response to catecholamine adenylate cyclase-activating dopamine receptor signaling pathway cellular response to catecholamine stimulus G protein-coupled dopamine receptor signaling pathway response to nitrogen compound adenylate cyclase-activating G protein-coupled receptor signaling pathway cellular response to monoamine stimulus adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway synaptic signaling cellular response to acetylcholine cell-cell signaling acetylcholine receptor signaling pathway postsynaptic signal transduction G protein-coupled acetylcholine receptor signaling pathway response to acetylcholine	cellular anatomical structure membrane protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cytoplasmic side of plasma membrane GTPase complex cellular anatomical structure membrane protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cytoplasmic side of plasma membrane GTPase complex extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle non-motile cilium 9+0 non-motile cilium cilium neuron projection photoreceptor disc membrane photoreceptor outer segment plasma membrane bounded cell projection cell projection photoreceptor cell cilium organelle membrane intracellular anatomical structure cytoplasm cytosol vacuolar membrane lytic vacuole vacuole intracellular membrane-bounded organelle intracellular organelle lytic vacuole membrane bounding membrane of organelle lysosomal membrane lysosome synapse cell junction
A	Guanine nucleotide-binding protein G(s) subunit alpha isoforms XLas	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F [auth R]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
F [auth R]	IPR001418	Opioid receptor	Family
F [auth R]	IPR000321	Delta opioid receptor	Family
F [auth R]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
C [auth G]	IPR001770	G-protein, gamma subunit	Family
C [auth G]	IPR015898	G-protein, gamma subunit-like domain	Domain
C [auth G]	IPR036284	G-protein gamma-like domain superfamily	Homologous Superfamily
B	IPR019775	WD40 repeat, conserved site	Conserved Site
B	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
B	IPR001632	G-protein beta subunit-like, WD40 repeats	Domain
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR016346	G-protein subunit beta 1-5	Family
B	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B	IPR001680	WD40 repeat	Repeat

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth G]	: P59768	pancreatic intraductal papillary-mucinous neoplasm pilocytic astrocytoma sarcoidosis ulcerative colitis adrenal cortex carcinoma breast carcinoma Duchenne muscular dystrophy glioblastoma large cell medulloblastoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer Sjogren syndrome X-linked mixed deafness with perilymphatic gusher pancreatic intraductal papillary-mucinous neoplasm pilocytic astrocytoma sarcoidosis ulcerative colitis adrenal cortex carcinoma breast carcinoma Duchenne muscular dystrophy glioblastoma large cell medulloblastoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer Sjogren syndrome X-linked mixed deafness with perilymphatic gusher astrocytic tumor Crohn disease ductal breast carcinoma in situ interstitial cystitis lung carcinoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma Pick disease primitive neuroectodermal tumor thoracic aortic aneurysm atypical teratoid rhabdoid tumor cystic fibrosis Emery-Dreifuss muscular dystrophy invasive ductal breast carcinoma malignant ependymoma osteosarcoma
B	: P62873	intellectual disability, autosomal dominant 42 melancholia intellectual disability endogenous depression medulloblastoma myopathy ovarian cancer Precursor Cell Lymphoblastic Leukemia Lymphoma Sjogren syndrome anxiety disorder chronic kidney disease juvenile dermatomyositis lung adenocarcinoma neurotic disorder pancreatic ductal adenocarcinoma intellectual disability, autosomal dominant 42 melancholia intellectual disability endogenous depression medulloblastoma myopathy ovarian cancer Precursor Cell Lymphoblastic Leukemia Lymphoma Sjogren syndrome anxiety disorder chronic kidney disease juvenile dermatomyositis lung adenocarcinoma neurotic disorder pancreatic ductal adenocarcinoma subependymal giant cell astrocytoma breast cancer Duchenne muscular dystrophy leukemia, acute lymphocytic, susceptibility to, 1 malignant pancreatic neoplasm myelodysplastic syndrome osteosarcoma plasma cell myeloma rheumatoid arthritis swine influenza childhood acute lymphoblastic leukemia depressive disorder

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
E [auth P]	DAL	: AA0111 , AA0191 : meso-lanthionine MOD:00120 , D-alanine (Ala) MOD:00198 , D-alanine (Ser) MOD:00858 , D-alanine MOD:00862
E [auth P]	DLE	: AA0111 , AA0191 , AA0197 : meso-lanthionine MOD:00120 , D-alanine (Ala) MOD:00198 , D-alanine (Ser) MOD:00858 , D-alanine MOD:00862 , D-leucine MOD:00204

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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.