5OJM | pdb_00005ojm

Structure of a chimaeric beta3-alpha5 GABAA receptor in complex with nanobody Nb25

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
J [auth O]	Ig_3	e5ojmO1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
I [auth N]	Ig_3	e5ojmN1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
H [auth M]	Ig_3	e5ojmM1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
G [auth L]	Ig_3	e5ojmL1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
F [auth K]	Ig_3	e5ojmK1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
E	Ig_3	e5ojmE1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
D	Ig_3	e5ojmD1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
C	Ig_3	e5ojmC1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
B	Ig_3	e5ojmB1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)
A	Ig_3	e5ojmA1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ig_3	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
E	1.20.58.390	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
D	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
D	1.20.58.390	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
C	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
C	1.20.58.390	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
B	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
B	1.20.58.390	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
A	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
A	1.20.58.390	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
F [auth K], G [auth L], H [auth M], I [auth N], J [auth O]	Heavy Chain	IGHV1	-	human gabaa receptor chimera beta3-alpha5,gamma-aminobutyric acid receptor subunit beta-3,gamma-aminobutyric acid receptor subunit alpha-5	SAbDab (2026-04-17)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF02932	Neurotransmitter-gated ion-channel transmembrane region (Neur_chan_memb)	Neurotransmitter-gated ion-channel transmembrane region	-	Family
A, B, C, D, E	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
F [auth K], G [auth L], H [auth M], I [auth N], J [auth O]	Nanobody Nb25	-	-	-
A, B, C, D, E	Human GABAA receptor chimera beta3-alpha5,Gamma-aminobutyric acid receptor subunit beta-3,Gamma-aminobutyric acid receptor subunit alpha-5	transmitter-gated monoatomic ion channel activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity GABA-gated chloride ion channel activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor 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 GABA-gated chloride ion channel activity molecular transducer activity gated channel activity monoatomic ion channel activity signaling receptor 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 GABA-A receptor activity GABA receptor activity transmembrane signaling receptor activity transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential identical protein binding protein binding binding ligand-gated monoatomic ion channel activity involved in regulation of presynaptic membrane potential signaling receptor binding GABA receptor binding	developmental process ear development sensory organ development inner ear development cochlea development animal organ development anatomical structure development response to stimulus response to chemical response to xenobiotic stimulus behavior multicellular organismal process system process learning developmental process ear development sensory organ development inner ear development cochlea development animal organ development anatomical structure development response to stimulus response to chemical response to xenobiotic stimulus behavior multicellular organismal process system process learning learning or memory nervous system process cognition exploration behavior 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 cellular process inorganic anion transport cellular response to nitrogen compound cellular response to stimulus cellular response to chemical stimulus response to histamine cellular response to histamine response to nitrogen compound circadian sleep/wake cycle, sleep rhythmic process circadian sleep/wake cycle rhythmic behavior circadian rhythm circadian behavior circadian sleep/wake cycle, REM sleep sleep circadian sleep/wake cycle process hard palate development secondary palate development roof of mouth development mechanoreceptor differentiation inner ear receptor cell development cellular developmental process cell development nervous system development inner ear receptor cell differentiation generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation neuron development system development regulation of biological process signaling biological regulation cell-cell signaling gamma-aminobutyric acid signaling pathway cell communication memory head development brain development cerebellum development central nervous system development metencephalon development hindbrain development response to anesthetic regulation of cellular process signal transduction reproductive process multicellular organismal reproductive process reproductive behavior inhibitory synapse assembly cellular component organization cellular component biogenesis cell junction organization cellular component assembly cell junction assembly synapse organization cellular component organization or biogenesis synapse assembly cellular response to metal ion response to metal ion response to zinc ion cellular response to zinc ion regulation of postsynaptic membrane potential chemical synaptic transmission, postsynaptic synaptic signaling regulation of biological quality trans-synaptic signaling cell surface receptor signaling pathway chemical synaptic transmission anterograde trans-synaptic signaling inhibitory postsynaptic potential regulation of membrane potential biological process involved in intraspecies interaction between organisms social behavior motor behavior synaptic transmission, GABAergic nerve development innervation associative learning behavioral defense response fear response behavioral fear response defense response response to stress multicellular organismal response to stress	protein-containing complex cellular anatomical structure transmembrane transporter complex membrane chloride channel complex membrane protein complex transporter complex monoatomic ion channel complex cell periphery postsynapse postsynaptic membrane synapse cell junction plasma membrane protein-containing complex cellular anatomical structure transmembrane transporter complex membrane chloride channel complex membrane protein complex transporter complex monoatomic ion channel complex cell periphery postsynapse postsynaptic membrane synapse cell junction plasma membrane plasma membrane region synaptic membrane cell surface postsynaptic specialization membrane postsynaptic specialization organelle GABA receptor complex signaling receptor complex GABA-A receptor complex GABA-ergic synapse membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle cytoplasm vesicle organelle membrane neuron spine neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection dendrite dendritic tree cytosol presynapse presynaptic membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen cell leading edge leading edge membrane neuron projection membrane dendrite membrane cell projection membrane neuronal cell body membrane cell body cell body membrane neuronal cell body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR006202	Neurotransmitter-gated ion-channel ligand-binding domain	Domain
A, B, C, D, E	IPR036719	Neurotransmitter-gated ion-channel transmembrane domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR006028	Gamma-aminobutyric acid A receptor/Glycine receptor alpha	Family
A, B, C, D, E	IPR002289	Gamma-aminobutyric-acid A receptor, beta subunit	Family
A, B, C, D, E	IPR006029	Neurotransmitter-gated ion-channel transmembrane domain	Domain
A, B, C, D, E	IPR036734	Neurotransmitter-gated ion-channel ligand-binding domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR018000	Neurotransmitter-gated ion-channel, conserved site	Conserved Site
A, B, C, D, E	IPR038050	Neuronal acetylcholine receptor	Homologous Superfamily
A, B, C, D, E	IPR006201	Neurotransmitter-gated ion-channel	Family
A, B, C, D, E	IPR001390	Gamma-aminobutyric-acid A receptor, alpha subunit	Family
A, B, C, D, E	IPR006202	Neurotransmitter-gated ion-channel ligand-binding domain	Domain
A, B, C, D, E	IPR036719	Neurotransmitter-gated ion-channel transmembrane domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR006028	Gamma-aminobutyric acid A receptor/Glycine receptor alpha	Family
A, B, C, D, E	IPR006029	Neurotransmitter-gated ion-channel transmembrane domain	Domain
A, B, C, D, E	IPR005435	Gamma-aminobutyric-acid A receptor, alpha 5 subunit	Family
A, B, C, D, E	IPR036734	Neurotransmitter-gated ion-channel ligand-binding domain superfamily	Homologous Superfamily
A, B, C, D, E	IPR018000	Neurotransmitter-gated ion-channel, conserved site	Conserved Site
A, B, C, D, E	IPR038050	Neuronal acetylcholine receptor	Homologous Superfamily
A, B, C, D, E	IPR047024	Gamma-aminobutyric acid receptor subunit alpha 1-6, transmembrane domain	Domain
A, B, C, D, E	IPR006201	Neurotransmitter-gated ion-channel	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E	Pharos: P31644	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 Social Communication Disorder epilepsy visual epilepsy status epilepticus mixed anxiety and depressive disorder duplication/inversion 15q11 oligodendroglioma pilocytic astrocytoma hydrolethalus syndrome primitive neuroectodermal tumor intellectual disability atypical teratoid rhabdoid tumor malignant ependymoma breast cancer tetanus peptic ulcer disease glioblastoma schizoaffective disorder astrocytic tumor irritable bowel syndrome autism large cell medulloblastoma malignant glioma epilepsy with generalized tonic-clonic seizures panic disorder generalized anxiety disorder Pick disease alcohol withdrawal delirium insomnia schizophrenia autism spectrum disorder medulloblastoma bipolar disorder

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

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