4Z34

Crystal Structure of Human Lysophosphatidic Acid Receptor 1 in complex with ONO9780307

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
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	8091237	4001858	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	G protein-coupled receptor-like	8091238	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	e4z34A2	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	e4z34A1	A: alpha bundles	X: Four-helical up-and-down bundle	H: Cytochromes (From Topology)	T: Cytochromes	F: Cytochrom_B562_1	ECOD (1.6)

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)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Lysophosphatidic acid receptor 1, Soluble cytochrome b562	binding organic cyclic compound 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 anion binding phospholipid binding lipid binding binding organic cyclic compound 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 anion binding phospholipid binding lipid binding lysophosphatidic acid binding carbohydrate derivative binding bioactive lipid receptor activity molecular transducer activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity lysophosphatidic acid receptor activity protein binding G-protein alpha-subunit binding PDZ domain binding protein domain specific binding	electron transport chain metabolic process cellular process generation of precursor metabolites and energy developmental process multicellular organism development multicellular organismal process nerve development cranial nerve development anatomical structure development optic nerve development nervous system development system development regulation of biological process electron transport chain metabolic process cellular process generation of precursor metabolites and energy developmental process multicellular organism development multicellular organismal process nerve development cranial nerve development anatomical structure development optic nerve development nervous system development system development regulation of biological process positive regulation of programmed cell death regulation of cellular process regulation of apoptotic process biological regulation positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death positive regulation of cellular process head development animal organ development brain development cerebellum development central nervous system development metencephalon development hindbrain development regulation of developmental process cellular developmental process cell projection organization positive regulation of dendritic spine development cell development regulation of dendritic spine development neuron projection development cellular component organization positive regulation of developmental process neurogenesis neuron differentiation dendrite development cell differentiation cellular component organization or biogenesis dendritic spine development plasma membrane bounded cell projection organization generation of neurons neuron development regulation of neuron projection development regulation of cellular component organization negative regulation of biological process negative regulation of cellular process negative regulation of cell projection organization negative regulation of cellular component organization regulation of cell projection organization negative regulation of neuron projection development regulation of plasma membrane bounded cell projection organization regulation of metabolic process cell chemotaxis cellular response to stimulus chemotaxis response to stimulus response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility locomotion signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication cAMP-mediated signaling regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus regulation of cell communication negative regulation of cAMP-mediated signaling regulation of cAMP-mediated signaling regulation of localization cellular localization transport regulation of transport regulation of synaptic vesicle cycle synaptic vesicle cycle regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport vesicle-mediated transport in synapse localization establishment of localization in cell import into cell receptor internalization postsynaptic neurotransmitter receptor internalization regulation of receptor internalization regulation of postsynaptic neurotransmitter receptor internalization regulation of biological quality regulation of endocytosis regulation of receptor-mediated endocytosis protein-containing complex localization neurotransmitter receptor internalization regulation of postsynaptic membrane neurotransmitter receptor levels postsynaptic endocytosis endocytosis receptor-mediated endocytosis corpus callosum development forebrain development telencephalon development positive regulation of cytosolic calcium ion concentration positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction positive regulation of response to stimulus positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction positive regulation of signaling cellular component biogenesis bleb assembly cellular component assembly plasma membrane bounded cell projection assembly cell projection assembly small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction Rho protein signal transduction regulation of Rho protein signal transduction positive regulation of Rho protein signal transduction positive regulation of small GTPase mediated signal transduction positive regulation of locomotion regulation of cell motility positive regulation of smooth muscle cell chemotaxis regulation of smooth muscle cell chemotaxis regulation of response to external stimulus regulation of smooth muscle cell migration positive regulation of smooth muscle cell migration positive regulation of chemotaxis positive regulation of cell migration muscle cell migration positive regulation of response to external stimulus positive regulation of cell motility smooth muscle cell chemotaxis regulation of cell migration regulation of chemotaxis smooth muscle cell migration regulation of locomotion negative regulation of organelle assembly negative regulation of plasma membrane bounded cell projection assembly cilium assembly cilium organization organelle assembly regulation of cell projection assembly regulation of cellular component biogenesis regulation of organelle organization regulation of plasma membrane bounded cell projection assembly organelle organization regulation of cilium assembly negative regulation of organelle organization regulation of organelle assembly negative regulation of cilium assembly cellular response to oxygen levels response to oxygen levels response to abiotic stimulus adenylate cyclase-activating G protein-coupled receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway regulation of cell shape cell morphogenesis regulation of cell morphogenesis anatomical structure morphogenesis regulation of anatomical structure morphogenesis oligodendrocyte development glial cell development gliogenesis oligodendrocyte differentiation glial cell differentiation positive regulation of MAPK cascade regulation of MAPK cascade MAPK cascade adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway myelination axon ensheathment ensheathment of neurons response to lipid response to 1-oleoyl-sn-glycerol 3-phosphate response to organophosphorus response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to lipid cellular response to 1-oleoyl-sn-glycerol 3-phosphate positive regulation of organelle organization regulation of cytoskeleton organization regulation of actin filament-based process positive regulation of cellular component organization regulation of actin filament bundle assembly positive regulation of actin filament bundle assembly actin filament bundle organization positive regulation of stress fiber assembly actin filament-based process stress fiber assembly regulation of actin filament organization actin cytoskeleton organization actomyosin structure organization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization actin filament organization positive regulation of supramolecular fiber organization regulation of stress fiber assembly contractile actin filament bundle assembly regulation of actomyosin structure organization actin filament bundle assembly regulation of actin cytoskeleton organization regulation of supramolecular fiber organization supramolecular fiber organization cytoskeleton organization	cellular anatomical structure periplasmic space cell periphery postsynapse postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane presynapse presynaptic membrane intracellular anatomical structure cellular anatomical structure periplasmic space cell periphery postsynapse postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane presynapse presynaptic membrane intracellular anatomical structure cytoplasm glutamatergic synapse somatodendritic compartment cell projection dendrite dendritic tree neuron projection dendritic shaft plasma membrane bounded cell projection neuron spine dendritic spine cell body neuronal cell body cell surface GABA-ergic synapse membrane-bounded organelle endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR010980	Cytochrome c/b562	Homologous Superfamily
A	IPR009155	Cytochrome b562	Family
A	IPR002277	Lysophosphatidic acid receptor EDG-2	Family
A	IPR004065	Lysophosphatidic acid receptor	Family
A	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A	IPR017452	GPCR, rhodopsin-like, 7TM	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q92633	acute myeloid leukemia prostate cancer Craniofacial Abnormalities anosmia breast carcinoma colorectal cancer invasive ductal breast carcinoma lung carcinoma malignant glioma adrenal cortex carcinoma ovarian cancer atopic eczema schizophrenia subependymal giant cell astrocytoma Emery-Dreifuss muscular dystrophy acute myeloid leukemia prostate cancer Craniofacial Abnormalities anosmia breast carcinoma colorectal cancer invasive ductal breast carcinoma lung carcinoma malignant glioma adrenal cortex carcinoma ovarian cancer atopic eczema schizophrenia subependymal giant cell astrocytoma Emery-Dreifuss muscular dystrophy glioblastoma large cell medulloblastoma malignant colon neoplasm malignant mesothelioma oligodendroglioma pituitary cancer breast cancer colorectal adenoma Down syndrome lung cancer malignant ependymoma medulloblastoma osteosarcoma astrocytic tumor primitive neuroectodermal tumor psoriasis Sjogren syndrome Duchenne muscular dystrophy genetic endocrine growth 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	LPA₁ Lysophosphatidic Acid Receptor 1 in complex with ONO-9780307

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.