4DJC | pdb_00004djc

1.35 A crystal structure of the NaV1.5 DIII-IV-Ca/CaM complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4djca1	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Calmodulin	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4djca2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	EF-hand	8033438	3001983	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		e4djcA1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: Interferon	F:	ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13499	EF-hand domain pair (EF-hand_7)	EF-hand domain pair		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Sodium channel protein type 5 subunit alpha	monoatomic cation transmembrane transporter activity voltage-gated sodium channel activity involved in cardiac muscle cell action potential voltage-gated sodium channel activity monoatomic ion channel activity sodium channel activity sodium ion transmembrane transporter activity monoatomic cation channel activity passive transmembrane transporter activity channel activity voltage-gated sodium channel activity involved in AV node cell action potential monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity monoatomic cation transmembrane transporter activity voltage-gated sodium channel activity involved in cardiac muscle cell action potential voltage-gated sodium channel activity monoatomic ion channel activity sodium channel activity sodium ion transmembrane transporter activity monoatomic cation channel activity passive transmembrane transporter activity channel activity voltage-gated sodium channel activity involved in AV node cell action potential monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity cytoskeletal protein binding ankyrin binding protein binding binding fibroblast growth factor binding growth factor binding calmodulin binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding nitric-oxide synthase binding voltage-gated sodium channel activity involved in bundle of His cell action potential protein domain specific binding voltage-gated sodium channel activity involved in SA node cell action potential voltage-gated sodium channel activity involved in Purkinje myocyte action potential scaffold protein binding transmembrane transporter binding kinase binding protein kinase binding	membrane depolarization during action potential membrane depolarization biological regulation membrane depolarization during cardiac muscle cell action potential action potential regulation of biological quality cardiac muscle cell action potential regulation of membrane potential heart process multicellular organismal process system process cardiac muscle cell action potential involved in contraction atrial cardiac muscle cell to AV node cell signaling regulation of heart contraction membrane depolarization during action potential membrane depolarization biological regulation membrane depolarization during cardiac muscle cell action potential action potential regulation of biological quality cardiac muscle cell action potential regulation of membrane potential heart process multicellular organismal process system process cardiac muscle cell action potential involved in contraction atrial cardiac muscle cell to AV node cell signaling regulation of heart contraction regulation of system process cardiac muscle contraction striated muscle contraction cell communication circulatory system process actin filament-based process regulation of multicellular organismal process atrial cardiac muscle cell to AV node cell communication cell communication involved in cardiac conduction blood circulation cardiac muscle cell contraction regulation of biological process atrial cardiac muscle cell action potential actin filament-based movement muscle contraction muscle system process regulation of blood circulation membrane depolarization during atrial cardiac muscle cell action potential cardiac conduction cellular process actin-mediated cell contraction heart contraction regulation of heart rate developmental process anatomical structure development brainstem development AV node cell to bundle of His cell communication regulation of cellular process regulation of membrane depolarization regulation of ventricular cardiac muscle cell membrane depolarization bundle of His cell to Purkinje myocyte signaling bundle of His cell to Purkinje myocyte communication bundle of His cell action potential regulation of atrial cardiac muscle cell membrane depolarization cardiac muscle cell membrane repolarization membrane repolarization regulation of membrane repolarization ventricular cardiac muscle cell membrane repolarization regulation of cardiac muscle cell membrane repolarization regulation of ventricular cardiac muscle cell membrane repolarization AV node cell action potential AV node cell to bundle of His cell signaling head development animal organ development brain development nervous system development multicellular organism development cerebellum development central nervous system development metencephalon development hindbrain development system development cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to stimulus response to metal ion response to chemical cellular response to calcium ion response to calcium ion Purkinje myocyte to ventricular cardiac muscle cell communication membrane depolarization during Purkinje myocyte cell action potential signaling Purkinje myocyte action potential cell-cell signaling Purkinje myocyte to ventricular cardiac muscle cell signaling localization transport monoatomic ion transport monoatomic cation transport establishment of localization sodium ion transport metal ion transport regulation of muscle adaptation regulation of muscle system process response to muscle inactivity muscle adaptation response to denervation involved in regulation of muscle adaptation regulation of response to stimulus response to inactivity regulation of heart rate by cardiac conduction ventricular cardiac muscle cell action potential regulation of actin filament-based process regulation of cardiac muscle contraction regulation of striated muscle contraction regulation of actin filament-based movement regulation of muscle contraction regulation of cardiac muscle cell contraction membrane depolarization during AV node cell action potential anatomical structure morphogenesis odontogenesis of dentin-containing tooth odontogenesis animal organ morphogenesis SA node cell to atrial cardiac muscle cell signaling SA node cell to atrial cardiac muscle cell communication SA node cell action potential membrane depolarization during SA node cell action potential cell population proliferation positive regulation of cell population proliferation positive regulation of epithelial cell proliferation positive regulation of biological process regulation of cell population proliferation regulation of epithelial cell proliferation epithelial cell proliferation positive regulation of cellular process monoatomic ion transmembrane transport sodium ion transmembrane transport monoatomic cation transmembrane transport transmembrane transport heart development cardiac chamber development cardiac ventricle development circulatory system development regulation of action potential positive regulation of action potential regulation of localization regulation of monoatomic ion transmembrane transport regulation of sodium ion transport regulation of sodium ion transmembrane transport regulation of metal ion transport regulation of transport regulation of monoatomic ion transport regulation of transmembrane transport regulation of monoatomic cation transmembrane transport forebrain development telencephalon development atrial cardiac muscle cell membrane repolarization regulation of atrial cardiac muscle cell membrane repolarization cardiac conduction system development cardiac muscle tissue development tissue development striated muscle tissue development muscle tissue development positive regulation of sodium ion transport positive regulation of transport positive regulation of monoatomic ion transport membrane depolarization during bundle of His cell action potential	cell periphery cellular anatomical structure sarcolemma plasma membrane membrane T-tubule intracellular anatomical structure intracellular membraneless organelle Z disc sarcomere intracellular organelle I band organelle membraneless organelle cell periphery cellular anatomical structure sarcolemma plasma membrane membrane T-tubule intracellular anatomical structure intracellular membraneless organelle Z disc sarcomere intracellular organelle I band organelle membraneless organelle contractile muscle fiber cytoplasm supramolecular fiber myofibril supramolecular polymer supramolecular complex perinuclear region of cytoplasm cell-cell junction intercalated disc anchoring junction cell junction cell-cell contact zone membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen organelle lumen nuclear lumen cell surface membrane microdomain membrane raft plasma membrane raft plasma membrane region caveola nucleoplasm protein-containing complex sodium channel complex voltage-gated sodium channel complex plasma membrane protein complex membrane protein complex cation channel complex transporter complex transmembrane transporter complex monoatomic ion channel complex lateral plasma membrane endoplasmic reticulum endomembrane system
A	Calmodulin	cytoskeletal protein binding titin binding protein binding binding enzyme regulator activity protein phosphatase activator activity enzyme activator activity phosphatase activator activity molecular function activator activity phosphatase regulator activity molecular function regulator activity protein phosphatase regulator activity channel regulator activity ion channel regulator activity cytoskeletal protein binding titin binding protein binding binding enzyme regulator activity protein phosphatase activator activity enzyme activator activity phosphatase activator activity molecular function activator activity phosphatase regulator activity molecular function regulator activity protein phosphatase regulator activity channel regulator activity ion channel regulator activity calcium channel regulator activity transporter regulator activity molecular function inhibitor activity transporter inhibitor activity calcium channel inhibitor activity ion channel inhibitor activity channel inhibitor activity cyclase regulator activity cyclase activator activity adenylate cyclase regulator activity adenylate cyclase activator activity protein serine/threonine kinase activator activity kinase activator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity cation binding ion binding calcium ion binding metal ion binding small molecule binding transmembrane transporter binding kinase binding enzyme binding protein kinase binding calcium-dependent protein binding	organelle localization by membrane tethering localization organelle localization cellular process membrane docking heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process biological regulation circulatory system process regulation of blood circulation organelle localization by membrane tethering localization organelle localization cellular process membrane docking heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process biological regulation circulatory system process regulation of blood circulation regulation of multicellular organismal process regulation of biological quality heart contraction blood circulation regulation of heart rate regulation of localization regulation of calcium ion transport negative regulation of ion transmembrane transporter activity regulation of cellular process negative regulation of calcium ion transmembrane transporter activity transport negative regulation of monoatomic ion transport monoatomic ion transmembrane transport negative regulation of biological process negative regulation of ryanodine-sensitive calcium-release channel activity regulation of transmembrane transporter activity negative regulation of transport regulation of monoatomic ion transmembrane transport negative regulation of transmembrane transport calcium ion transport metal ion transport regulation of calcium ion transmembrane transport monoatomic cation transmembrane transport negative regulation of monoatomic ion transmembrane transport negative regulation of release of sequestered calcium ion into cytosol negative regulation of cellular process monoatomic ion transport negative regulation of cation transmembrane transport monoatomic cation transport regulation of metal ion transport calcium ion transmembrane import into cytosol regulation of transport regulation of release of sequestered calcium ion into cytosol regulation of monoatomic ion transport negative regulation of transporter activity negative regulation of molecular function establishment of localization negative regulation of calcium ion transport transmembrane transport regulation of molecular function release of sequestered calcium ion into cytosol regulation of transmembrane transport regulation of ryanodine-sensitive calcium-release channel activity regulation of monoatomic cation transmembrane transport negative regulation of calcium ion transmembrane transport calcium ion transmembrane transport response to stimulus response to metal ion response to chemical response to calcium ion sarcoplasmic reticulum calcium ion transport release of sequestered calcium ion into cytosol by sarcoplasmic reticulum release of sequestered calcium ion into cytosol by endoplasmic reticulum regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum negative regulation of voltage-gated calcium channel activity regulation of voltage-gated calcium channel activity negative regulation of high voltage-gated calcium channel activity cellular component disassembly catabolic process protein-containing complex organization macroautophagy autophagy protein-containing complex disassembly cellular component organization autophagosome maturation autophagosome membrane docking metabolic process cellular component organization or biogenesis process utilizing autophagic mechanism cellular response to interferon-beta response to peptide response to interferon-beta response to cytokine cellular response to cytokine stimulus regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cell division cell division cell cycle regulation of cell cycle cell cycle process cellular response to stimulus cardiac muscle contraction intracellular signal transduction cell communication intracellular signaling cassette signal transduction regulation of cardiac muscle contraction muscle contraction regulation of striated muscle contraction calcium-mediated signaling regulation of muscle contraction signaling regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion striated muscle contraction regulation of cardiac muscle contraction by calcium ion signaling muscle system process regulation of muscle system process mitochondrion-endoplasmic reticulum membrane tethering import into cell cellular localization presynaptic endocytosis vesicle-mediated transport vesicle-mediated transport in synapse establishment of localization in cell endocytosis cell cycle G2/M phase transition mitotic cell cycle process G2/M transition of mitotic cell cycle cell cycle phase transition mitotic cell cycle mitotic cell cycle phase transition cell communication by electrical coupling involved in cardiac conduction cell communication by electrical coupling regulation of cell communication by electrical coupling involved in cardiac conduction cardiac conduction regulation of cell communication cell communication involved in cardiac conduction regulation of cell communication by electrical coupling export across plasma membrane negative regulation of calcium ion export across plasma membrane regulation of calcium ion export across plasma membrane calcium ion export across plasma membrane export from cell biological process involved in interspecies interaction between organisms immune response response to other organism defense response response to type II interferon defense response to symbiont response to external stimulus cellular response to type II interferon response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus calcineurin-mediated signaling developmental process head development animal organ development brain development nervous system development substantia nigra development multicellular organism development central nervous system development midbrain development anatomical structure development neural nucleus development system development positive regulation of cell communication cell surface receptor signaling pathway via STAT positive regulation of signal transduction positive regulation of biological process positive regulation of receptor signaling pathway via STAT regulation of signal transduction positive regulation of receptor signaling pathway via JAK-STAT positive regulation of response to stimulus regulation of receptor signaling pathway via JAK-STAT positive regulation of cellular process regulation of signaling cell surface receptor signaling pathway regulation of response to stimulus regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT positive regulation of signaling regulation of intracellular signal transduction regulation of calcium-mediated signaling regulation of action potential regulation of cardiac muscle cell action potential action potential cardiac muscle cell action potential regulation of membrane potential G protein-coupled receptor signaling pathway modulation of chemical synaptic transmission long-term synaptic potentiation synaptic signaling regulation of synaptic plasticity trans-synaptic signaling cell-cell signaling positive regulation of synaptic transmission chemical synaptic transmission regulation of trans-synaptic signaling anterograde trans-synaptic signaling detection of stimulus detection of chemical stimulus detection of calcium ion	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton cytoplasm cytosol membrane-bounded organelle cell projection intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton cytoplasm cytosol membrane-bounded organelle cell projection sperm midpiece cilium 9+2 motile cilium sperm flagellum motile cilium plasma membrane bounded cell projection protein-containing complex transmembrane transporter complex membrane membrane protein complex cation channel complex transporter complex calcium channel complex monoatomic ion channel complex axon synapse neuron projection axon terminus presynapse distal axon calyx of Held cell junction neuron projection terminus sarcomere contractile muscle fiber supramolecular fiber myofibril supramolecular polymer supramolecular complex intracellular vesicle transport vesicle membrane endomembrane system bounding membrane of organelle cytoplasmic vesicle vesicle membrane synaptic vesicle synaptic vesicle membrane vesicle transport vesicle exocytic vesicle membrane intracellular membrane-bounded organelle cytoplasmic vesicle membrane secretory vesicle organelle membrane exocytic vesicle myelin sheath centrosome microtubule organizing center presynaptic cytosol cell periphery plasma membrane catalytic complex nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen voltage-gated potassium channel complex plasma membrane protein complex potassium channel complex extracellular region polymeric cytoskeletal fiber spindle microtubule microtubule

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR010526	Sodium ion transport-associated domain	Domain
B	IPR043203	Voltage-gated cation channel calcium and sodium	Family
B	IPR008053	Voltage gated sodium channel, alpha-5 subunit	Family
B	IPR024583	Voltage-gated Na+ ion channel, cytoplasmic domain	Domain
B	IPR001696	Voltage gated sodium channel, alpha subunit	Family
B	IPR058542	SCN5A-like, C-terminal IQ motif	Domain
B	IPR005821	Ion transport domain	Domain
B	IPR044564	Voltage-gated sodium channel alpha subunit, inactivation gate	Domain
B	IPR027359	Voltage-dependent channel domain superfamily	Homologous Superfamily
A	IPR002048	EF-hand domain	Domain
A	IPR050230	Calmodulin/Myosin light chain/Troponin C-like	Family
A	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A	IPR011992	EF-hand domain pair	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q14524	atrial fibrillation Sudden infant death syndrome Brugada syndrome long QT syndrome familial atrial fibrillation long QT syndrome 3 dilated cardiomyopathy 1E progressive familial heart block, type 1A ventricular fibrillation, paroxysmal familial, type 1 atrial fibrillation, familial, 10 ventricular tachycardia dilated cardiomyopathy sick sinus syndrome torsades de pointes sick sinus syndrome 1 atrial fibrillation Sudden infant death syndrome Brugada syndrome long QT syndrome familial atrial fibrillation long QT syndrome 3 dilated cardiomyopathy 1E progressive familial heart block, type 1A ventricular fibrillation, paroxysmal familial, type 1 atrial fibrillation, familial, 10 ventricular tachycardia dilated cardiomyopathy sick sinus syndrome torsades de pointes sick sinus syndrome 1 arrhythmogenic right ventricular cardiomyopathy cardiomyopathy Brugada syndrome 1 long QT syndrome 1 psoriasis scabies epilepsy with generalized tonic-clonic seizures amyotrophic lateral sclerosis familial isolated dilated cardiomyopathy status epilepticus glossopharyngeal neuralgia hemorrhoid Pediculus humanus capitis infestation tinea pedis premature ejaculation trigeminal neuralgia Pthirus pubis infestation Charcot-Marie-Tooth disease malaria epilepsy neuralgia familial long QT syndrome atrial standstill tinea corporis left ventricular noncompaction bipolar disorder urethritis progressive familial heart block familial dilated cardiomyopathy familial sick sinus syndrome paroxysmal familial ventricular fibrillation atrial fibrillation, familial, 1 heart disease partial epilepsy atrial standstill 1 hypertrophic cardiomyopathy Lennox-Gastaut syndrome postherpetic neuralgia
A	Pharos: P0DP23	long QT syndrome catecholaminergic polymorphic ventricular tachycardia Alzheimer disease long QT syndrome 14 cocaine abuse Weight Gain cannabis dependence cocaine dependence phencyclidine abuse catecholaminergic polymorphic ventricular tachycardia 4 rheumatoid arthritis glioblastoma subependymal giant cell astrocytoma large cell medulloblastoma lung adenocarcinoma long QT syndrome catecholaminergic polymorphic ventricular tachycardia Alzheimer disease long QT syndrome 14 cocaine abuse Weight Gain cannabis dependence cocaine dependence phencyclidine abuse catecholaminergic polymorphic ventricular tachycardia 4 rheumatoid arthritis glioblastoma subependymal giant cell astrocytoma large cell medulloblastoma lung adenocarcinoma malignant colon neoplasm malignant pancreatic neoplasm astrocytic tumor myopathy osteosarcoma pituitary cancer Crohn disease primitive neuroectodermal tumor familial long QT syndrome schizophrenia lung cancer malignant ependymoma atypical teratoid rhabdoid tumor nasopharyngeal carcinoma ovarian cancer catecholaminergic polymorphic ventricular tachycardia 2 Pick disease plasma cell myeloma exocrine pancreatic carcinoma psoriasis sinusitis hepatocellular carcinoma ulcerative colitis lymphoplasmacytic lymphoma malignant glioma amyotrophic lateral sclerosis medulloblastoma breast cancer oligodendroglioma pilocytic astrocytoma

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.