5CGD | pdb_00005cgd

Structure of the human class C GPCR metabotropic glutamate receptor 5 transmembrane domain in complex with the negative allosteric modulator 3-chloro-5-[6-(5-fluoropyridin-2-yl)pyrimidin-4-yl]benzonitrile - (HTL14242)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
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	SCOP2B Superfamily	G protein-coupled receptor-like	8091093	3000473	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Lysozyme-like	8033861	3001879	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_3	e5cgdA1	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_3	ECOD (1.6)
A	Phage_lysozyme_2	e5cgdA2	A: a+b complex topology	X: Lysozyme-like (From Homology)	H: Lysozyme-like	T: Lysozyme-like	F: Phage_lysozyme_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.530.40	Mainly Alpha	Orthogonal Bundle	Lysozyme		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00959	Phage lysozyme (Phage_lysozyme)	Phage lysozyme	This family includes lambda phage lysozyme and E. coli endolysin.	Domain
A	PF00003	7 transmembrane sweet-taste receptor of 3 GCPR (7tm_3)	7 transmembrane sweet-taste receptor of 3 GCPR	This is a domain of seven transmembrane regions that forms the C-terminus of some subclass 3 G-coupled-protein receptors. It is often associated with a downstream cysteine-rich linker domain, NCD3G Pfam:PF07562, which is the human sweet-taste recepto ...	This is a domain of seven transmembrane regions that forms the C-terminus of some subclass 3 G-coupled-protein receptors. It is often associated with a downstream cysteine-rich linker domain, NCD3G Pfam:PF07562, which is the human sweet-taste receptor, and the N-terminal domain, ANF_receptor Pfam:PF01094. The seven TM regions assemble in such a way as to produce a docking pocket into which such molecules as cyclamate and lactisole have been found to bind and consequently confer the taste of sweetness [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Metabotropic glutamate receptor 5,Endolysin,Metabotropic glutamate receptor 5	protein tyrosine kinase activator activity enzyme regulator activity catalytic activity, acting on a protein molecular function activator activity kinase activity protein kinase activity transferase activity protein kinase regulator activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups kinase activator activity enzyme activator activity protein tyrosine kinase activity molecular function regulator activity catalytic activity protein tyrosine kinase activator activity enzyme regulator activity catalytic activity, acting on a protein molecular function activator activity kinase activity protein kinase activity transferase activity protein kinase regulator activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups kinase activator activity enzyme activator activity protein tyrosine kinase activity molecular function regulator activity catalytic activity protein kinase activator activity kinase regulator activity glutamate receptor activity G protein-coupled glutamate receptor activity molecular transducer activity adenylate cyclase inhibiting G protein-coupled glutamate receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity protein binding binding A2A adenosine receptor binding signaling receptor binding G protein-coupled receptor binding adenosine receptor binding neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium ion concentration neurotransmitter receptor activity postsynaptic neurotransmitter receptor activity G protein-coupled receptor activity involved in regulation of postsynaptic membrane potential protein tyrosine kinase binding kinase binding enzyme binding protein kinase binding identical protein binding hydrolase activity, acting on glycosyl bonds peptidoglycan muralytic activity hydrolase activity, hydrolyzing O-glycosyl compounds lysozyme activity hydrolase activity	behavior multicellular organismal process locomotory behavior cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus behavior multicellular organismal process locomotory behavior cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of calcium-mediated signaling positive regulation of calcium-mediated signaling signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction regulation of response to stimulus calcium-mediated signaling regulation of cell communication cellular process positive regulation of signaling system process learning learning or memory nervous system process cognition negative adaptation of signaling pathway negative regulation of signaling negative regulation of biological process desensitization of G protein-coupled receptor signaling pathway negative regulation of G protein-coupled receptor signaling pathway negative regulation of cell communication negative regulation of cellular process regulation of G protein-coupled receptor signaling pathway negative regulation of response to stimulus negative regulation of signal transduction adaptation of signaling pathway G protein-coupled receptor signaling pathway trans-synaptic signaling trans-synaptic signaling, modulating synaptic transmission modulation of chemical synaptic transmission trans-synaptic signaling by endocannabinoid cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling trans-synaptic signaling by lipid, modulating synaptic transmission anterograde trans-synaptic signaling trans-synaptic signaling by lipid trans-synaptic signaling by endocannabinoid, modulating synaptic transmission cellular component organization cell junction organization synapse organization cellular component organization or biogenesis positive regulation of MAPK cascade regulation of MAPK cascade MAPK cascade RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process cell surface receptor signaling pathway phospholipase C-activating G protein-coupled glutamate receptor signaling pathway glutamate receptor signaling pathway G protein-coupled glutamate receptor signaling pathway phospholipase C-activating G protein-coupled receptor signaling pathway positive regulation of nervous system development regulation of long-term neuronal synaptic plasticity regulation of developmental process cellular developmental process cell development regulation of cell differentiation regulation of neurogenesis regulation of cell development regulation of nervous system development positive regulation of developmental process multicellular organism development neurogenesis positive regulation of cell differentiation cell differentiation anatomical structure development positive regulation of long-term neuronal synaptic plasticity positive regulation of neurogenesis regulation of multicellular organismal process regulation of biological quality system development regulation of neuronal synaptic plasticity regulation of synaptic plasticity developmental process regulation of multicellular organismal development positive regulation of cell development nervous system development positive regulation of multicellular organismal process synaptic transmission, glutamatergic regulation of synaptic transmission, glutamatergic cellular response to nitrogen compound response to oxygen-containing compound response to nitrogen compound cellular response to amyloid-beta cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to amyloid-beta biological process involved in interspecies interaction between organisms response to other organism defense response response to external stimulus response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus carbohydrate derivative catabolic process catabolic process peptidoglycan catabolic process glycosaminoglycan metabolic process carbohydrate derivative metabolic process aminoglycan catabolic process macromolecule catabolic process glycosaminoglycan catabolic process aminoglycan metabolic process peptidoglycan metabolic process symbiont-mediated cytolysis of host cell viral life cycle disruption of cell in another organism cytolysis biological process involved in interaction with host biological process involved in symbiotic interaction viral release from host cell by cytolysis exit from host cell viral process cytolysis in another organism viral release from host cell disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing cell wall organization or biogenesis cell wall macromolecule catabolic process cell wall macromolecule metabolic process	postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic specialization membrane postsynaptic specialization synapse membrane plasma membrane postsynaptic density membrane synaptic membrane cell periphery postsynaptic density postsynapse cellular anatomical structure neuron to neuron synapse organelle cell junction postsynaptic membrane asymmetric synapse plasma membrane region glial cell projection cell projection plasma membrane bounded cell projection astrocyte projection somatodendritic compartment dendrite dendritic tree neuron projection intracellular anatomical structure cytoplasm glutamatergic synapse dendritic shaft neuron spine dendritic spine Schaffer collateral - CA1 synapse cell body neuronal cell body host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR017978	GPCR family 3, C-terminal	Domain
A	IPR017979	GPCR, family 3, conserved site	Conserved Site
A	IPR000337	GPCR, family 3	Family
A	IPR038550	GPCR, family 3, nine cysteines domain superfamily	Homologous Superfamily
A	IPR011500	GPCR, family 3, nine cysteines domain	Domain
A	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A	IPR019588	Metabotropic glutamate receptor, Homer-binding domain	Domain
A	IPR000202	GPCR, family 3, metabotropic glutamate receptor 5	Family
A	IPR000162	GPCR, family 3, metabotropic glutamate receptor	Family
A	IPR001828	Receptor, ligand binding region	Domain
A	IPR050726	Metabotropic Glutamate Receptor	Family
A	IPR052619	Bacteriophage lysozyme-like	Family
A	IPR001165	T4-type lysozyme	Family
A	IPR034690	Endolysin T4 type	Family
A	IPR002196	Glycoside hydrolase, family 24	Family
A	IPR023347	Lysozyme domain superfamily	Homologous Superfamily
A	IPR023346	Lysozyme-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P41594	status epilepticus diabetic neuropathy diabetic polyneuropathy schizophrenia attention deficit hyperactivity disorder, inattentive type bipolar disorder cocaine abuse neuralgia temporal lobe epilepsy cocaine dependence diabetic autonomic neuropathy Organic Mental Disorders, Substance-Induced drug dependence pituitary cancer endogenous depression status epilepticus diabetic neuropathy diabetic polyneuropathy schizophrenia attention deficit hyperactivity disorder, inattentive type bipolar disorder cocaine abuse neuralgia temporal lobe epilepsy cocaine dependence diabetic autonomic neuropathy Organic Mental Disorders, Substance-Induced drug dependence pituitary cancer endogenous depression retinal detachment skin basal cell carcinoma astrocytic tumor substance dependence major depressive disorder autism spectrum disorder medulloblastoma cleft lip X-linked mixed deafness with perilymphatic gusher endometriosis fragile X syndrome squamous cell carcinoma substance abuse hypertensive disorder malignant ependymoma melanoma oligodendroglioma psoriasis glioblastoma large cell medulloblastoma substance-related disorder atypical teratoid rhabdoid tumor malignant glioma cancer vitiligo cutaneous melanoma

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 C	Metabotropic Glutamate Receptor 5 (mGlu₅) with bound compound 14

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.