5VA1

Cryo-EM structure of the human ether-a-go-go related K+ channel

External Resource: Annotation

Domain Annotation: SCOP2 Classification
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
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	PYP-like sensor domain (PAS domain)	8036124	3000471	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	cNMP_binding_1	e5va1A1	A: beta sandwiches	X: jelly-roll	H: Double-stranded beta-helix (From Topology)	T: Double-stranded beta-helix	F: cNMP_binding_1	ECOD (1.6)
A	Ion_trans_2_1	e5va1A3	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Ion_trans_2_1	ECOD (1.6)
A	PAS	e5va1A2	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: PAS	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13426	PAS domain (PAS_9)	PAS domain	This domain is found in many signalling proteins in which it functions as a sensor domain. It recognises FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain
A	PF07885	Ion channel (Ion_trans_2)	Ion channel	-	Family
A	PF00520	Ion transport protein (Ion_trans)	Ion transport protein	-	Family
A	PF00027	Cyclic nucleotide-binding domain (cNMP_binding)	Cyclic nucleotide-binding domain	This domain sensor domain can bind cAMP, cGMP, c-di-GMP, oxygen and 2-oxoglutarate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Potassium voltage-gated channel subfamily H member 2	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding transcription regulatory region nucleic acid binding scaffold protein binding protein binding monoatomic cation transmembrane transporter activity gated channel activity monoatomic ion channel activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding transcription regulatory region nucleic acid binding scaffold protein binding protein binding monoatomic cation transmembrane transporter activity gated channel activity monoatomic ion channel activity potassium ion transmembrane transporter activity voltage-gated channel activity voltage-gated monoatomic ion channel activity potassium channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity voltage-gated potassium channel 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 voltage-gated potassium channel activity involved in cardiac muscle cell action potential repolarization voltage-gated potassium channel activity involved in ventricular cardiac muscle cell action potential repolarization delayed rectifier potassium channel activity identical protein binding protein homodimerization activity protein dimerization activity ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding inward rectifier potassium channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity ligand-gated monoatomic cation channel activity	transport monoatomic ion transmembrane transport potassium ion transmembrane transport inorganic ion transmembrane transport establishment of localization metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport potassium ion transport cellular process monoatomic cation transport transport monoatomic ion transmembrane transport potassium ion transmembrane transport inorganic ion transmembrane transport establishment of localization metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport potassium ion transport cellular process monoatomic cation transport regulation of biological process membrane repolarization regulation of membrane repolarization biological regulation regulation of biological quality regulation of membrane potential heart process multicellular organismal process regulation of heart rate by chemical signal system process regulation of heart contraction regulation of system process circulatory system process regulation of blood circulation regulation of multicellular organismal process heart contraction regulation of heart rate by hormone blood circulation regulation of heart rate cardiac muscle cell membrane repolarization ventricular cardiac muscle cell membrane repolarization regulation of cardiac muscle cell membrane repolarization regulation of ventricular cardiac muscle cell membrane repolarization regulation of localization regulation of potassium ion transport regulation of cellular process negative regulation of monoatomic ion transport negative regulation of biological process negative regulation of transport regulation of monoatomic ion transmembrane transport negative regulation of transmembrane transport negative regulation of monoatomic ion transmembrane transport negative regulation of cellular process negative regulation of cation transmembrane transport regulation of metal ion transport negative regulation of potassium ion transport regulation of transport regulation of monoatomic ion transport negative regulation of potassium ion transmembrane transport regulation of potassium ion transmembrane transport regulation of transmembrane transport regulation of monoatomic cation transmembrane transport membrane depolarization during action potential membrane depolarization action potential export from cell export across plasma membrane potassium ion export across plasma membrane membrane repolarization during action potential cardiac muscle cell action potential involved in contraction membrane repolarization during cardiac muscle cell action potential cardiac muscle contraction striated muscle contraction actin filament-based process cardiac muscle cell contraction ventricular cardiac muscle cell action potential actin filament-based movement muscle contraction muscle system process membrane repolarization during ventricular cardiac muscle cell action potential cardiac muscle cell action potential actin-mediated cell contraction potassium ion homeostasis inorganic ion homeostasis chemical homeostasis homeostatic process monoatomic ion homeostasis monoatomic cation homeostasis positive regulation of DNA-templated transcription cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process positive regulation of cellular biosynthetic process cellular response to stimulus cellular response to chemical stimulus response to stimulus response to chemical cellular response to xenobiotic stimulus response to xenobiotic stimulus negative regulation of potassium ion export across plasma membrane regulation of potassium ion export across plasma membrane import into cell import across plasma membrane inorganic cation import across plasma membrane inorganic ion import across plasma membrane potassium ion import across plasma membrane positive regulation of cation transmembrane transport positive regulation of monoatomic ion transport positive regulation of transmembrane transport positive regulation of monoatomic ion transmembrane transport positive regulation of potassium ion transport positive regulation of transport positive regulation of potassium ion transmembrane transport cardiac conduction regulation of heart rate by cardiac conduction	cell surface cellular anatomical entity cell periphery plasma membrane membrane voltage-gated potassium channel complex protein-containing complex plasma membrane protein complex potassium channel complex membrane protein complex cation channel complex transporter complex transmembrane transporter complex monoatomic ion channel complex cell surface cellular anatomical entity cell periphery plasma membrane membrane voltage-gated potassium channel complex protein-containing complex plasma membrane protein complex potassium channel complex membrane protein complex cation channel complex transporter complex transmembrane transporter complex monoatomic ion channel complex intracellular anatomical structure perinuclear region of cytoplasm cytoplasm inward rectifier potassium channel complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily
A	IPR000700	PAS-associated, C-terminal	Domain
A	IPR005821	Ion transport domain	Domain
A	IPR003938	Potassium channel, voltage-dependent, EAG/ELK/ERG-like	Family
A	IPR000014	PAS domain	Domain
A	IPR000595	Cyclic nucleotide-binding domain	Domain
A	IPR003967	Potassium channel, voltage-dependent, ERG	Family
A	IPR035965	PAS domain superfamily	Homologous Superfamily
A	IPR001610	PAC motif	Repeat
A	IPR050818	Potassium channel, voltage-dependent, EAG/ELK/ERG-like, animal-type	Family
A	IPR018490	Cyclic nucleotide-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q12809	long QT syndrome long QT syndrome 2 short QT syndrome type 1 muscular atrophy atrial fibrillation torsades de pointes malignant colon neoplasm Brugada syndrome short QT syndrome cancer schizophrenia familial atrial fibrillation subependymal giant cell astrocytoma hypertensive disorder ventricular fibrillation long QT syndrome long QT syndrome 2 short QT syndrome type 1 muscular atrophy atrial fibrillation torsades de pointes malignant colon neoplasm Brugada syndrome short QT syndrome cancer schizophrenia familial atrial fibrillation subependymal giant cell astrocytoma hypertensive disorder ventricular fibrillation adrenal cortex carcinoma LONG QT SYNDROME 2/5, DIGENIC (disorder) arrhythmogenic right ventricular cardiomyopathy autosomal dominant cardiac arrhythmia (Kuhn) medulloblastoma cardiomyopathy osteosarcoma carpal tunnel syndrome psoriasis colonic neoplasm familial long QT syndrome Lambert-Eaton myasthenic syndrome long QT syndrome 1 allergic rhinitis malignant ependymoma benign colon neoplasm metabolic syndrome X myocardial infarction ovarian cancer dilated cardiomyopathy heart disease lung carcinoma atypical teratoid rhabdoid tumor malignant mesothelioma benign neoplasm multiple sclerosis cerebrovascular disorder

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Alpha-helical polytopic	Ion channel (VIC) superfamily	K+ voltage-gated channel KCNH/hERG

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	Channels: Potassium, Sodium, & Proton Ion-Selective	hERG voltage-dependent K⁺ channel hERG_T

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.