3WFN | pdb_00003wfn

Crystal Structure of Nav1.6 IQ motif in complex with apo-CaM

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth E]	EF-hand_1, EF-hand_6, EF-hand_7	e3wfnE5	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: EF-hand_1, EF-hand_6, EF-hand_7	ECOD (v294.1)
C [auth D]	EF-hand_1	e3wfnD5	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: EF-hand_1	ECOD (v294.1)
C [auth D]	EF-hand_1, IQ, EF-hand_6, EF-hand_7	e3wfnD6	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: EF-hand_1, IQ, EF-hand_6, EF-hand_7	ECOD (v294.1)
B [auth C]	EF-hand_1, EF-hand_6, EF-hand_7	e3wfnC5	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: EF-hand_1, EF-hand_6, EF-hand_7	ECOD (v294.1)
A [auth B]	DNA_ligase_aden,Nlig-Ia	e3wfnB3	A: a/b three-layered sandwiches	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: DNA_ligase_aden,Nlig-Ia	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth C], C [auth D], D [auth E]	PF24609	SCN5A-like, C-terminal IQ motif (IQ_SCN5A_C)	SCN5A-like, C-terminal IQ motif	Human Sodium channel protein type 5 subunit alpha (SCN5A) mediates the voltage-dependent sodium ion permeability of excitable membranes. Its C-terminal domain is organised into two regions: an IQ motif and an EF-hand domain. This entry represents the ...	Human Sodium channel protein type 5 subunit alpha (SCN5A) mediates the voltage-dependent sodium ion permeability of excitable membranes. Its C-terminal domain is organised into two regions: an IQ motif and an EF-hand domain. This entry represents the IQ motif, a key element in the calcium sensing apparatus [4].	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	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
A [auth B], B [auth C], C [auth D], D [auth E]	Calmodulin, Sodium channel protein type 8 subunit alpha	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 enzyme binding adenylate cyclase binding 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 enzyme binding adenylate cyclase binding phosphatidylinositol 3-kinase binding channel regulator activity ion channel regulator activity calcium channel regulator activity transporter regulator activity nitric-oxide synthase 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 nitric-oxide synthase binding cation binding ion binding calcium ion binding metal ion binding small molecule binding protein domain specific binding signaling receptor binding type 3 metabotropic glutamate receptor binding glutamate receptor binding G protein-coupled receptor binding G protein-coupled glutamate receptor binding transmembrane transporter binding kinase binding protein kinase binding calcium-dependent protein binding monoatomic cation transmembrane transporter activity 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 monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity alkali metal ion binding sodium ion 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 intercellular 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 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 import into cell cellular localization regulation of cellular component organization synaptic vesicle cycle regulation of synaptic vesicle recycling vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling regulation of synaptic vesicle endocytosis establishment of localization in cell regulation of endocytosis synaptic vesicle endocytosis regulation of vesicle-mediated transport endocytosis cellular response to interferon-beta response to peptide response to interferon-beta response to cytokine cellular response to cytokine stimulus response to ketone response to lipid response to endogenous stimulus response to alcohol response to glucocorticoid response to oxygen-containing compound response to corticosterone response to mineralocorticoid response to corticosteroid response to hormone response to steroid hormone 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 cell surface receptor signaling pathway via STAT cell surface receptor signaling pathway signaling cell communication signal transduction cell surface receptor signaling pathway via JAK-STAT cardiac muscle contraction intracellular signal transduction intracellular signaling cassette regulation of cardiac muscle contraction muscle contraction regulation of striated muscle contraction calcium-mediated signaling regulation of muscle contraction 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 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 regulated exocytosis modulation of chemical synaptic transmission synaptic vesicle exocytosis regulation of regulated secretory pathway synaptic signaling regulation of secretion by cell secretion by cell signal release trans-synaptic signaling regulation of signaling neurotransmitter secretion secretion regulation of neurotransmitter transport regulation of synaptic vesicle exocytosis export from cell cell-cell signaling neurotransmitter transport regulation of secretion chemical synaptic transmission signal release from synapse regulation of trans-synaptic signaling exocytosis regulation of neurotransmitter secretion anterograde trans-synaptic signaling regulation of exocytosis regulation of cell communication 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 cell communication involved in cardiac conduction regulation of cell communication by electrical coupling 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 positive regulation of cell communication 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 response to stimulus regulation of receptor signaling pathway via STAT positive regulation of signaling regulation of action potential regulation of cardiac muscle cell action potential action potential cardiac muscle cell action potential regulation of membrane potential response to amine response to nitrogen compound response to amphetamine detection of stimulus detection of chemical stimulus detection of calcium ion behavior locomotory behavior developmental process muscle structure development animal organ development anatomical structure development muscle organ development membrane depolarization during action potential membrane depolarization response to toxic substance sodium ion transmembrane transport sodium ion transport nervous system process transmission of nerve impulse neuronal action potential sensory perception sensory perception of sound sensory perception of mechanical stimulus multicellular organism development nerve development nervous system development system development adult walking behavior adult locomotory behavior adult behavior walking behavior sensory perception of pain	intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton membrane-bounded organelle mitochondrial membrane mitochondrion membrane intracellular organelle cellular anatomical structure intracellular anatomical structure cytoskeleton spindle organelle membraneless organelle intracellular membraneless organelle spindle pole microtubule cytoskeleton membrane-bounded organelle mitochondrial membrane mitochondrion membrane intracellular membrane-bounded organelle organelle envelope mitochondrial envelope cytoplasm organelle membrane cytosol 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 protein complex cation channel complex transporter complex calcium channel complex monoatomic ion channel complex chromatin chromosome 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 cytoplasmic vesicle membrane secretory vesicle exocytic vesicle myelin sheath centrosome microtubule organizing center presynaptic cytosol catalytic complex growth cone site of polarized growth nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen voltage-gated potassium channel complex plasma membrane protein complex plasma membrane potassium channel complex cell periphery Schaffer collateral - CA1 synapse polymeric cytoskeletal fiber spindle microtubule microtubule postsynapse postsynaptic cytosol postsynaptic specialization membrane postsynaptic specialization postsynaptic density membrane synaptic membrane postsynaptic density neuron to neuron synapse postsynaptic membrane asymmetric synapse plasma membrane region Z disc I band main axon node of Ranvier podosome actin cytoskeleton parallel fiber to Purkinje cell synapse excitatory synapse sodium channel complex somatodendritic compartment dendrite dendritic tree axon initial segment glutamatergic synapse presynaptic active zone membrane presynaptic membrane presynaptic active zone voltage-gated sodium channel complex cell body neuronal cell body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth C], C [auth D], D [auth E]	IPR002048	EF-hand domain	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	IPR050230	Calmodulin/Myosin light chain/Troponin C-like	Family
A [auth B], B [auth C], C [auth D], D [auth E]	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A [auth B], B [auth C], C [auth D], D [auth E]	IPR011992	EF-hand domain pair	Homologous Superfamily
A [auth B], B [auth C], C [auth D], D [auth E]	IPR024583	Voltage-gated Na+ ion channel, cytoplasmic domain	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	IPR001696	Voltage gated sodium channel, alpha subunit	Family
A [auth B], B [auth C], C [auth D], D [auth E]	IPR058542	SCN5A-like, C-terminal IQ motif	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	IPR000048	IQ motif, EF-hand binding site	Binding Site
A [auth B], B [auth C], C [auth D], D [auth E]	IPR010526	Sodium ion transport-associated domain	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	IPR005821	Ion transport domain	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	IPR008054	Voltage gated sodium channel, alpha-8 subunit	Family
A [auth B], B [auth C], C [auth D], D [auth E]	IPR044564	Voltage-gated sodium channel alpha subunit, inactivation gate	Domain
A [auth B], B [auth C], C [auth D], D [auth E]	IPR043203	Voltage-gated cation channel calcium and sodium	Family
A [auth B], B [auth C], C [auth D], D [auth E]	IPR027359	Voltage-dependent channel domain superfamily	Homologous Superfamily

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.