4DKL

Crystal structure of the mu-opioid receptor bound to a morphinan antagonist

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
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	SCOP2B Superfamily	Lysozyme-like	8033861	3001879	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	G protein-coupled receptor-like	8091218	3000473	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_1	e4dklA3	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_1	ECOD (1.6)
A	Phage_lysozyme_2	e4dklA4	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	1.20.1070.10	Mainly Alpha	Up-down Bundle	Rhopdopsin 7-helix transmembrane proteins	Rhodopsin 7-helix transmembrane proteins	CATH (4.3.0)
A	1.10.530.40	Mainly Alpha	Orthogonal Bundle	Lysozyme		CATH (4.3.0)

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	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	Mu-type opioid receptor, lysozyme chimera	binding neuropeptide binding peptide binding protein binding G-protein alpha-subunit binding peptide receptor activity molecular transducer activity beta-endorphin receptor 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 melanocortin receptor activity binding neuropeptide binding peptide binding protein binding G-protein alpha-subunit binding peptide receptor activity molecular transducer activity beta-endorphin receptor 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 melanocortin receptor activity neuropeptide receptor activity morphine receptor activity protein domain specific binding calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity channel activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity G-protein beta-subunit binding hydrolase activity, acting on glycosyl bonds peptidoglycan muralytic activity hydrolase activity, hydrolyzing O-glycosyl compounds lysozyme activity hydrolase activity catalytic activity	trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process modulation of chemical synaptic transmission signaling biological regulation cell-cell signaling presynaptic modulation of chemical synaptic transmission chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling trans-synaptic signaling regulation of biological process regulation of signaling regulation of cellular process modulation of chemical synaptic transmission signaling biological regulation cell-cell signaling presynaptic modulation of chemical synaptic transmission chemical synaptic transmission cell communication synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication cellular process cellular response to stimulus response to stimulus G protein-coupled opioid receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction multi-multicellular organism process multicellular organismal process sperm ejaculation reproductive process multicellular organismal reproductive process mating behavior behavior reproductive behavior insemination multi-organism reproductive process copulation system process nervous system process transmission of nerve impulse phospholipase C-activating G protein-coupled receptor signaling pathway regulation of biological quality negative regulation of cytosolic calcium ion concentration negative regulation of signaling negative regulation of biological process regulation of signal transduction 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 adenylate cyclase-activating G protein-coupled receptor signaling pathway negative regulation of signal transduction negative regulation of adenylate cyclase-activating G protein-coupled receptor signaling pathway regulation of response to stimulus adenylate cyclase-modulating G protein-coupled receptor signaling pathway regulation of adenylate cyclase-activating G protein-coupled receptor signaling pathway positive regulation of nervous system development regulation of developmental process cellular developmental process positive regulation of biological 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 neurogenesis regulation of multicellular organismal process positive regulation of cellular process system development developmental process regulation of multicellular organismal development positive regulation of cell development nervous system development positive regulation of multicellular organismal process 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 response to organic cyclic compound G protein-coupled dopamine receptor signaling pathway cellular response to organic cyclic compound response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to monoamine stimulus response to chemical negative regulation of intracellular signal transduction intracellular signal transduction cAMP-mediated signaling regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cAMP-mediated signaling regulation of cAMP-mediated signaling neuropeptide signaling pathway monosaccharide metabolic process cellular biosynthetic process positive regulation of cellular metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of gluconeogenesis regulation of biosynthetic process carbohydrate metabolic process small molecule biosynthetic process carbohydrate biosynthetic process cellular metabolic process hexose metabolic process primary metabolic process monosaccharide biosynthetic process regulation of cellular metabolic process regulation of cellular biosynthetic process hexose biosynthetic process positive regulation of glucose metabolic process biosynthetic process regulation of gluconeogenesis metabolic process positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process glucose metabolic process locomotory behavior cellular response to acetylcholine acetylcholine receptor signaling pathway postsynaptic signal transduction adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway G protein-coupled acetylcholine receptor signaling pathway response to acetylcholine adenylate cyclase-inhibiting G protein-coupled acetylcholine receptor signaling pathway positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling regulation of localization transport regulation of signaling receptor activity regulation of transmembrane transporter activity regulation of transporter activity localization regulation of NMDA receptor activity regulation of monoatomic ion transmembrane transporter activity regulation of transport establishment of localization transmembrane transport regulation of molecular function regulation of transmembrane transport regulation of neurotransmitter receptor activity negative regulation of luteinizing hormone secretion regulation of system process negative regulation of transport regulation of luteinizing hormone secretion negative regulation of secretion luteinizing hormone secretion negative regulation of hormone secretion negative regulation of secretion by cell regulation of hormone levels regulation of secretion endocrine hormone secretion negative regulation of gonadotropin secretion negative regulation of multicellular organismal process regulation of endocrine process regulation of hormone secretion gonadotropin secretion hormone secretion secretion by cell regulation of secretion by cell signal release secretion regulation of gonadotropin secretion export from cell endocrine process hormone transport eating behavior feeding behavior adenylate cyclase-inhibiting opioid receptor signaling pathway regulation of nitric oxide biosynthetic process negative regulation of metabolic process negative regulation of nitric oxide metabolic process reactive nitrogen species metabolic process nitric oxide metabolic process nitric oxide biosynthetic process negative regulation of nitric oxide biosynthetic process negative regulation of biosynthetic process regulation of nitric oxide metabolic process response to nutrient levels regulation of response to nutrient levels positive regulation of appetite regulation of response to food response to food positive regulation of response to food regulation of appetite positive regulation of response to nutrient levels response to alcohol response to ethanol regulation of postsynaptic membrane potential chemical synaptic transmission, postsynaptic cell surface receptor signaling pathway excitatory postsynaptic potential regulation of membrane potential biological process involved in intraspecies interaction between organisms social behavior sensory perception sensory perception of pain protein localization negative regulation of protein transport establishment of protein localization nitrogen compound transport cellular macromolecule localization 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 Wnt protein secretion protein localization to extracellular region regulation of Wnt protein secretion negative regulation of protein localization regulation of establishment of protein localization regulation of protein transport Wnt protein secretion protein transport regulation of cellular localization macromolecule localization 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 macromolecule 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 disruption of cellular anatomical structure in another organism 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 disruption of plasma membrane integrity in another organism cell wall organization or biogenesis cell wall macromolecule catabolic process cell wall macromolecule metabolic process	cell periphery postsynapse postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region cellular anatomical entity synaptic membrane somatodendritic compartment cell body perikaryon neuronal cell body cell periphery postsynapse postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region cellular anatomical entity synaptic membrane somatodendritic compartment cell body perikaryon neuronal cell body presynapse presynaptic membrane cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection axon anchoring junction focal adhesion cell-substrate junction GABA-ergic synapse neuron projection cytoplasm intracellular anatomical structure cytoplasmic region plasma membrane bounded cell projection cytoplasm dendrite cytoplasm cytoplasm cell leading edge leading edge membrane neuron projection membrane dendrite membrane cell projection membrane membrane-bounded organelle endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle vesicle neuron spine dendritic spine spine apparatus 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	IPR001418	Opioid receptor	Family
A	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
A	IPR000105	Mu opioid 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

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	μ-opioid receptor bound to a morphinan antagonist

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.