9YDA | pdb_00009yda

Cryo-EM structure of active human green cone opsin in complex with chimeric G protein (miniGist)

External Resource: Annotation

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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	multicellular organismal process system process sensory perception of chemical stimulus sensory perception nervous system process sensory perception of taste developmental process sensory organ development eye development animal organ development retina development in camera-type eye visual system development multicellular organism development camera-type eye development multicellular organismal process system process sensory perception of chemical stimulus sensory perception nervous system process sensory perception of taste developmental process sensory organ development eye development animal organ development retina development in camera-type eye visual system development multicellular organism development camera-type eye development anatomical structure development sensory system development system development cell population proliferation cellular process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation 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 phospholipase C-activating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway 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 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 extracellular space 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
E [auth A]	Genome polyprotein,Guanine nucleotide-binding protein G(s) subunit alpha isoforms XLas	-	-	-
D [auth H]	scFv16	-	-	-
C [auth G]	Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2	protein binding binding G-protein beta-subunit binding	fibroblast proliferation cell population proliferation cellular 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 fibroblast proliferation cell population proliferation cellular 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 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 extracellular space vesicle extracellular membrane-bounded organelle synapse cell junction
A [auth R]	Medium-wave-sensitive opsin 1	G protein-coupled photoreceptor activity molecular transducer activity photoreceptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity identical protein binding protein binding binding	regulation of cytokinesis regulation of biological process regulation of cellular process positive regulation of cell division regulation of cell cycle process biological regulation positive regulation of biological process cytokinesis positive regulation of cell cycle regulation of cell division positive regulation of cytokinesis positive regulation of cell cycle process cellular process cell division regulation of cytokinesis regulation of biological process regulation of cellular process positive regulation of cell division regulation of cell cycle process biological regulation positive regulation of biological process cytokinesis positive regulation of cell cycle regulation of cell division positive regulation of cytokinesis positive regulation of cell cycle process cellular process cell division cell cycle regulation of cell cycle positive regulation of cellular process cell cycle process cellular response to stimulus response to light stimulus response to stimulus cellular response to light stimulus response to radiation response to abiotic stimulus cellular response to radiation cellular response to abiotic stimulus cellular response to environmental stimulus multicellular organismal process sensory perception of light stimulus system process sensory perception nervous system process visual perception phototransduction detection of light stimulus detection of external stimulus signaling response to external stimulus detection of abiotic stimulus cell communication detection of stimulus signal transduction G protein-coupled receptor signaling pathway	membrane-bounded organelle non-motile cilium membrane 9+0 non-motile cilium cilium neuron projection photoreceptor disc membrane photoreceptor outer segment plasma membrane bounded cell projection cell projection cellular anatomical structure photoreceptor cell cilium organelle organelle membrane membrane-bounded organelle non-motile cilium membrane 9+0 non-motile cilium cilium neuron projection photoreceptor disc membrane photoreceptor outer segment plasma membrane bounded cell projection cell projection cellular anatomical structure photoreceptor cell cilium organelle organelle membrane cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
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
A [auth R]	IPR000378	Opsin red/green sensitive	Family
A [auth R]	IPR027430	Visual pigments (opsins) retinal binding site	Binding Site
A [auth R]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A [auth R]	IPR050125	G-protein coupled receptor opsins	Family
A [auth R]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
A [auth R]	IPR001760	Opsin	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P62873	intellectual disability, autosomal dominant 42 melancholia intellectual disability endogenous depression medulloblastoma myopathy ovarian cancer Precursor Cell Lymphoblastic Leukemia Lymphoma anxiety disorder Sjogren syndrome 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 anxiety disorder Sjogren syndrome 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
C [auth G]	Pharos: 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
A [auth R]	Pharos: P04001	red-green color blindness blue cone monochromacy Achromatopsia incomplete, X-linked retinitis pigmentosa cone-rod dystrophy testicular germ cell tumor

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.