6QFA

CryoEM structure of a beta3K279T GABA(A)R homomer in complex with histamine and megabody Mb25

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
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: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth B]	PF02931	e6qfaB1	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: PF02931	ECOD (1.6)
A [auth B]	PF02932	e6qfaB2	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: PF02932	ECOD (1.6)
H [auth D]	PF02931	e6qfaD1	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: PF02931	ECOD (1.6)
H [auth D]	PF02932	e6qfaD2	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: PF02932	ECOD (1.6)
I [auth E]	PF02931	e6qfaE1	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: PF02931	ECOD (1.6)
I [auth E]	PF02932	e6qfaE2	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: PF02932	ECOD (1.6)
J [auth A]	PF02931	e6qfaA1	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: PF02931	ECOD (1.6)
J [auth A]	PF02932	e6qfaA2	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: PF02932	ECOD (1.6)
G [auth C]	PF02931	e6qfaC1	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: PF02931	ECOD (1.6)
G [auth C]	PF02932	e6qfaC2	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: PF02932	ECOD (1.6)
B [auth K]	PF07686	e6qfaK1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
C [auth O]	PF07686	e6qfaO1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D [auth N]	PF07686	e6qfaN1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
E [auth M]	PF07686	e6qfaM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
F [auth L]	PF07686	e6qfaL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth K], C [auth O], D [auth N], E [auth M], F [auth L]	Heavy Chain	IGHV1	-	gamma-aminobutyric acid receptor subunit beta-3,gamma-aminobutyric acid receptor subunit beta-3	SAbDab (2024-05-24)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	PF02932	Neurotransmitter-gated ion-channel transmembrane region (Neur_chan_memb)	Neurotransmitter-gated ion-channel transmembrane region	-	Family
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	PF02931	Neurotransmitter-gated ion-channel ligand binding domain (Neur_chan_LBD)	Neurotransmitter-gated ion-channel ligand binding domain	-	Family
B [auth K], C [auth O], D [auth N], E [auth M], F [auth L]	PF18304	SabA N-terminal extracellular adhesion domain (SabA_adhesion)	SabA N-terminal extracellular adhesion domain	This is the N-terminal extracellular adhesion domain of Sialic acid binding adhesin (SabA) present in Helicobacter pylori. The N-terminal domain of SabA functions as a sugar-binding adhesion domain with conserved disulfide bonds. Notably, these amino ...	This is the N-terminal extracellular adhesion domain of Sialic acid binding adhesin (SabA) present in Helicobacter pylori. The N-terminal domain of SabA functions as a sugar-binding adhesion domain with conserved disulfide bonds. Notably, these amino acid residues are not only conserved among SabA orthologs but also between SabA and BabA [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	Gamma-aminobutyric acid receptor subunit beta-3,Gamma-aminobutyric acid receptor subunit beta-3	transmitter-gated monoatomic ion channel activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity molecular transducer activity monoatomic ion channel activity neurotransmitter receptor activity ligand-gated channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity transporter activity GABA-gated chloride ion channel activity gated channel activity signaling receptor activity ligand-gated monoatomic anion channel activity transmitter-gated monoatomic ion channel activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity molecular transducer activity monoatomic ion channel activity neurotransmitter receptor activity ligand-gated channel activity passive transmembrane transporter activity inorganic molecular entity transmembrane transporter activity transporter activity GABA-gated chloride ion channel activity gated channel activity signaling receptor activity ligand-gated monoatomic anion channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity channel activity transmitter-gated channel activity monoatomic ion transmembrane transporter activity monoatomic anion channel activity transmembrane transporter activity inorganic anion transmembrane transporter activity chloride channel activity GABA-A receptor activity GABA receptor activity transmembrane signaling receptor activity identical protein binding protein binding binding	transport monoatomic ion transmembrane transport inorganic ion transmembrane transport inorganic anion transmembrane transport establishment of localization chloride transport transmembrane transport localization chloride transmembrane transport monoatomic anion transport monoatomic anion transmembrane transport monoatomic ion transport cellular process inorganic anion transport transport monoatomic ion transmembrane transport inorganic ion transmembrane transport inorganic anion transmembrane transport establishment of localization chloride transport transmembrane transport localization chloride transmembrane transport monoatomic anion transport monoatomic anion transmembrane transport monoatomic ion transport cellular process inorganic anion transport cellular response to stimulus cellular response to nitrogen compound response to organic substance response to stimulus response to organonitrogen compound response to endogenous stimulus cellular response to organic cyclic compound response to nitrogen compound cellular response to endogenous stimulus cellular response to chemical stimulus response to histamine cellular response to organonitrogen compound response to chemical cellular response to histamine cellular response to organic substance response to organic cyclic compound regulation of biological process signaling biological regulation cell-cell signaling gamma-aminobutyric acid signaling pathway cell communication regulation of cellular process signal transduction developmental process multicellular organismal process inhibitory synapse assembly nervous system development cellular component organization cellular component biogenesis multicellular organism development cell junction organization cellular component assembly cell junction assembly anatomical structure development synapse organization cellular component organization or biogenesis synapse assembly system development trans-synaptic signaling synaptic transmission, GABAergic chemical synaptic transmission synaptic signaling anterograde trans-synaptic signaling roof of mouth development	protein-containing complex transmembrane transporter complex membrane chloride channel complex membrane protein complex cellular anatomical entity transporter complex monoatomic ion channel complex cell periphery postsynapse postsynaptic membrane synapse cell junction plasma membrane protein-containing complex transmembrane transporter complex membrane chloride channel complex membrane protein complex cellular anatomical entity transporter complex monoatomic ion channel complex cell periphery postsynapse postsynaptic membrane synapse cell junction plasma membrane plasma membrane region synaptic membrane GABA receptor complex GABA-A receptor complex receptor complex cell projection neuron projection plasma membrane bounded cell projection membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane
B [auth K], C [auth O], D [auth N], E [auth M], F [auth L]	Outer membrane protein,Outer membrane protein,Outer membrane protein,Outer membrane protein,Uncharacterized protein,Uncharacterized protein,Mb-c7HopQ-Nb25	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR006202	Neurotransmitter-gated ion-channel ligand-binding domain	Domain
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR036719	Neurotransmitter-gated ion-channel transmembrane domain superfamily	Homologous Superfamily
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR006028	Gamma-aminobutyric acid A receptor/Glycine receptor alpha	Family
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR002289	Gamma-aminobutyric-acid A receptor, beta subunit	Family
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR006029	Neurotransmitter-gated ion-channel transmembrane domain	Domain
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR036734	Neurotransmitter-gated ion-channel ligand-binding domain superfamily	Homologous Superfamily
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR018000	Neurotransmitter-gated ion-channel, conserved site	Conserved Site
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR038050	Neuronal acetylcholine receptor	Homologous Superfamily
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	IPR006201	Neurotransmitter-gated ion-channel	Family
B [auth K], C [auth O], D [auth N], E [auth M], F [auth L]	IPR040838	SabA, N-terminal extracellular adhesion domain	Domain
B [auth K], C [auth O], D [auth N], E [auth M], F [auth L]	IPR002718	Outer membrane protein, Helicobacter	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth B], G [auth C], H [auth D], I [auth E], J [auth A]	Pharos: P28472	Angelman syndrome epilepsy childhood absence epilepsy Lennox-Gastaut syndrome developmental and epileptic encephalopathy, 43 epilepsy, childhood absence, susceptibility to, 5 absence epilepsy autism insomnia autism spectrum disorder intellectual disability schizophrenia malignant ependymoma depressive disorder duplication/inversion 15q11 Angelman syndrome epilepsy childhood absence epilepsy Lennox-Gastaut syndrome developmental and epileptic encephalopathy, 43 epilepsy, childhood absence, susceptibility to, 5 absence epilepsy autism insomnia autism spectrum disorder intellectual disability schizophrenia malignant ependymoma depressive disorder duplication/inversion 15q11 status epilepticus pancreatic intraductal papillary-mucinous neoplasm astrocytic tumor gastric carcinoma pilocytic astrocytoma glioblastoma primitive neuroectodermal tumor bipolar disorder interstitial cystitis brain injury juvenile absence epilepsy malignant glioma Sjogren syndrome mixed anxiety and depressive disorder epilepsy with generalized tonic-clonic seizures oligodendroglioma epilepsy, childhood absence, susceptibility to, 1 pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia peptic ulcer disease pituitary cancer psoriasis irritable bowel syndrome schizoaffective disorder large cell medulloblastoma lung carcinoma Crohn disease medulloblastoma alcohol withdrawal delirium early myoclonic encephalopathy tetanus panic disorder atypical teratoid rhabdoid tumor Pick disease generalized anxiety disorder Prader-Willi syndrome

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth B], B [auth K], C [auth O], D [auth N], E [auth M] A [auth B], B [auth K], C [auth O], D [auth N], E [auth M], F [auth L], G [auth C], H [auth D], I [auth E], J [auth A]	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 [auth B], B [auth K], C [auth O], D [auth N], E [auth M] A [auth B], B [auth K], C [auth O], D [auth N], E [auth M], F [auth L], G [auth C], H [auth D], I [auth E], J [auth A]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth B], B [auth K], C [auth O], D [auth N], E [auth M] A [auth B], B [auth K], C [auth O], D [auth N], E [auth M], F [auth L], G [auth C], H [auth D], I [auth E], J [auth A]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth B], B [auth K], C [auth O], D [auth N], E [auth M] A [auth B], B [auth K], C [auth O], D [auth N], E [auth M], F [auth L], G [auth C], H [auth D], I [auth E], J [auth A]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Cys-Loop Receptor Family	GABA_A receptor (β3 homopentamer) in complex with histamine and megabody Mb25

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 R01GM133198.