5BKF | pdb_00005bkf

Cyro-EM structure of human Glycine Receptor alpha2-beta heteromer, Glycine bound, desensitized state

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E	Neur_chan_LBD	e5bkfE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: Neur_chan_LBD	ECOD (1.6)
E	Neur_chan_memb	e5bkfE2	A: alpha bundles	X: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	H: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	T: Neurotransmitter-gated ion-channel transmembrane pore	F: Neur_chan_memb	ECOD (1.6)
D	Neur_chan_LBD	e5bkfD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: Neur_chan_LBD	ECOD (1.6)
D	Neur_chan_memb	e5bkfD2	A: alpha bundles	X: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	H: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	T: Neurotransmitter-gated ion-channel transmembrane pore	F: Neur_chan_memb	ECOD (1.6)
C	Neur_chan_LBD	e5bkfC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: Neur_chan_LBD	ECOD (1.6)
C	Neur_chan_memb	e5bkfC2	A: alpha bundles	X: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	H: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	T: Neurotransmitter-gated ion-channel transmembrane pore	F: Neur_chan_memb	ECOD (1.6)
B	Neur_chan_LBD	e5bkfB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: Neur_chan_LBD	ECOD (1.6)
B	Neur_chan_memb	e5bkfB2	A: alpha bundles	X: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	H: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	T: Neurotransmitter-gated ion-channel transmembrane pore	F: Neur_chan_memb	ECOD (1.6)
A	Neur_chan_LBD	e5bkfA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: Neur_chan_LBD	ECOD (1.6)
A	Neur_chan_memb	e5bkfA2	A: alpha bundles	X: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	H: Neurotransmitter-gated ion-channel transmembrane pore (From Topology)	T: Neurotransmitter-gated ion-channel transmembrane pore	F: Neur_chan_memb	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E	PF02932	Neurotransmitter-gated ion-channel transmembrane region (Neur_chan_memb)	Neurotransmitter-gated ion-channel transmembrane region	-	Family
E	PF02931	Neurotransmitter-gated ion-channel ligand binding domain (Neur_chan_LBD)	Neurotransmitter-gated ion-channel ligand binding domain	-	Family
A, B, C, D	PF02932	Neurotransmitter-gated ion-channel transmembrane region (Neur_chan_memb)	Neurotransmitter-gated ion-channel transmembrane region	-	Family
A, B, C, D	PF02931	Neurotransmitter-gated ion-channel ligand binding domain (Neur_chan_LBD)	Neurotransmitter-gated ion-channel ligand binding domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E	Glycine receptor subunit beta,Green fluorescent protein	monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity gated channel activity monoatomic ion channel activity inhibitory extracellular ligand-gated monoatomic ion channel activity excitatory extracellular ligand-gated monoatomic ion channel activity ligand-gated monoatomic anion channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity extracellularly glycine-gated ion channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity monoatomic anion channel activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity gated channel activity monoatomic ion channel activity inhibitory extracellular ligand-gated monoatomic ion channel activity excitatory extracellular ligand-gated monoatomic ion channel activity ligand-gated monoatomic anion channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity extracellularly glycine-gated ion channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity monoatomic anion channel activity transporter activity extracellularly glycine-gated chloride channel activity transmembrane transporter activity chloride channel activity cation binding organic acid binding binding ion binding anion binding glycine binding amino acid binding carboxylic acid binding small molecule binding protein-containing complex binding transmitter-gated monoatomic ion channel activity molecular transducer activity transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential signaling receptor activity neurotransmitter receptor activity postsynaptic neurotransmitter receptor activity neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential transmitter-gated channel activity transmembrane signaling receptor activity	bioluminescence metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication G protein-coupled receptor signaling pathway signal transduction neuropeptide signaling pathway bioluminescence metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication G protein-coupled receptor signaling pathway signal transduction neuropeptide signaling pathway membrane organization cellular localization gamma-aminobutyric acid receptor clustering postsynapse organization neurotransmitter-gated ion channel clustering localization within membrane protein localization to membrane cellular component organization localization cell junction organization receptor clustering macromolecule localization cellular component organization or biogenesis synapse organization intracellular protein localization postsynaptic membrane organization trans-synaptic signaling cell-cell signaling synaptic transmission, glycinergic chemical synaptic transmission synaptic signaling anterograde trans-synaptic signaling transport monoatomic ion transmembrane transport establishment of localization chloride transport transmembrane transport chloride transmembrane transport monoatomic anion transport monoatomic anion transmembrane transport monoatomic ion transport inorganic anion transport reflex response to external stimulus righting reflex startle response multicellular organismal process system process nervous system process neuromuscular process sexual reproduction acrosome reaction reproductive process fertilization single fertilization developmental process multicellular organism development anatomical structure development nervous system development system development sensory perception of light stimulus sensory perception visual perception adult walking behavior adult locomotory behavior behavior adult behavior locomotory behavior walking behavior	cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane glycinergic synapse protein-containing complex plasma membrane protein complex membrane protein complex cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane glycinergic synapse protein-containing complex plasma membrane protein complex membrane protein complex transporter complex transmembrane transporter complex chloride channel complex glycine-gated chloride channel complex monoatomic ion channel complex somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection intracellular anatomical structure cytoplasm postsynaptic specialization organelle GABA-ergic synapse
A, B, C, D	Glycine receptor subunit alpha-2	transmitter-gated monoatomic ion channel activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor activity glycine-gated chloride ion channel activity ligand-gated monoatomic anion channel activity neurotransmitter receptor activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity channel activity transmitter-gated monoatomic ion channel activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor activity glycine-gated chloride ion channel activity ligand-gated monoatomic anion channel activity neurotransmitter receptor activity ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity channel activity transmitter-gated channel activity monoatomic ion transmembrane transporter activity monoatomic anion channel activity transporter activity transmembrane transporter activity chloride channel activity inhibitory extracellular ligand-gated monoatomic ion channel activity excitatory extracellular ligand-gated monoatomic ion channel activity extracellularly glycine-gated ion channel activity extracellularly glycine-gated chloride channel activity cation binding organic acid binding binding ion binding anion binding glycine binding amino acid binding carboxylic acid binding small molecule binding transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential postsynaptic neurotransmitter receptor activity neurotransmitter receptor activity involved in regulation of postsynaptic membrane potential metal ion binding transmembrane signaling receptor activity	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication G protein-coupled receptor signaling pathway cellular process signal transduction neuropeptide signaling pathway transport monoatomic ion transmembrane transport establishment of localization cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication G protein-coupled receptor signaling pathway cellular process signal transduction neuropeptide signaling pathway transport monoatomic ion transmembrane transport establishment of localization chloride transport transmembrane transport localization chloride transmembrane transport monoatomic anion transport monoatomic anion transmembrane transport monoatomic ion transport inorganic anion transport trans-synaptic signaling regulation of signaling modulation of chemical synaptic transmission cell-cell signaling chemical synaptic transmission synaptic signaling regulation of trans-synaptic signaling anterograde trans-synaptic signaling regulation of cell communication cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical cellular response to chemical stimulus response to chemical response to amino acid response to alcohol response to oxygen-containing compound cellular response to oxygen-containing compound cellular response to alcohol cellular response to ethanol response to ethanol cellular response to metal ion response to metal ion response to zinc ion cellular response to zinc ion	protein-containing complex cellular anatomical structure transmembrane transporter complex membrane chloride channel complex membrane protein complex transporter complex monoatomic ion channel complex synapse cell junction glycinergic synapse cell periphery plasma membrane membrane-bounded organelle protein-containing complex cellular anatomical structure transmembrane transporter complex membrane chloride channel complex membrane protein complex transporter complex monoatomic ion channel complex synapse cell junction glycinergic synapse cell periphery plasma membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure organelle intracellular membrane-bounded organelle postsynaptic specialization membrane postsynaptic specialization synaptic membrane postsynapse postsynaptic membrane plasma membrane region GABA-ergic synapse cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E	IPR000786	Green fluorescent protein, GFP	Family
E	IPR011584	Green fluorescent protein-related	Family
E	IPR009017	Green fluorescent protein	Homologous Superfamily
E	IPR006202	Neurotransmitter-gated ion-channel ligand-binding domain	Domain
E	IPR036719	Neurotransmitter-gated ion-channel transmembrane domain superfamily	Homologous Superfamily
E	IPR047031	Glycine receptor subunit beta, extracellular domain	Domain
E	IPR006029	Neurotransmitter-gated ion-channel transmembrane domain	Domain
E	IPR036734	Neurotransmitter-gated ion-channel ligand-binding domain superfamily	Homologous Superfamily
E	IPR018000	Neurotransmitter-gated ion-channel, conserved site	Conserved Site
E	IPR038050	Neuronal acetylcholine receptor	Homologous Superfamily
E	IPR008060	Glycine receptor beta	Family
E	IPR047029	Glycine receptor subunit beta, transmembrane domain	Domain
E	IPR006201	Neurotransmitter-gated ion-channel	Family
A, B, C, D	IPR008129	Glycine receptor alpha2	Family
A, B, C, D	IPR006202	Neurotransmitter-gated ion-channel ligand-binding domain	Domain
A, B, C, D	IPR036719	Neurotransmitter-gated ion-channel transmembrane domain superfamily	Homologous Superfamily
A, B, C, D	IPR006028	Gamma-aminobutyric acid A receptor/Glycine receptor alpha	Family
A, B, C, D	IPR008127	Glycine receptor alpha	Family
A, B, C, D	IPR006029	Neurotransmitter-gated ion-channel transmembrane domain	Domain
A, B, C, D	IPR036734	Neurotransmitter-gated ion-channel ligand-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR018000	Neurotransmitter-gated ion-channel, conserved site	Conserved Site
A, B, C, D	IPR038050	Neuronal acetylcholine receptor	Homologous Superfamily
A, B, C, D	IPR006201	Neurotransmitter-gated ion-channel	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E	Pharos: P48167	hyperekplexia 2 hereditary hyperekplexia medulloblastoma ovarian cancer Pick disease subependymal giant cell astrocytoma adenoma atypical teratoid rhabdoid tumor Epileptic encephalopathy hyperekplexia 1 large cell medulloblastoma malignant ependymoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor hyperekplexia 2 hereditary hyperekplexia medulloblastoma ovarian cancer Pick disease subependymal giant cell astrocytoma adenoma atypical teratoid rhabdoid tumor Epileptic encephalopathy hyperekplexia 1 large cell medulloblastoma malignant ependymoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor astrocytic tumor breast cancer lung cancer malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis atopic eczema ductal breast carcinoma in situ glioblastoma hydrolethalus syndrome lung carcinoma
A, B, C, D	Pharos: P23416	hereditary hyperekplexia medulloblastoma schizophrenia intellectual disability onchocerciasis strongyloidiasis large cell medulloblastoma psoriasis

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E	OPM	Transmembrane	Alpha-helical polytopic	Pentameric ligand-gated ion channels	Ligand-gated ion channel of neurotransmitter receptors

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E	MemProtMD	Annotated as membrane protein by MemProtMD

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.

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Cyro-EM structure of human Glycine Receptor alpha2-beta heteromer, Glycine bound, desensitized state

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation

Membrane Protein Annotation: OPM OPM Database Homepage

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

5BKF | pdb_00005bkf