4DEX | pdb_00004dex

Crystal structure of the Voltage Dependent Calcium Channel beta-2 Subunit in Complex With The CaV2.2 I-II Linker.

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4dexa1	All beta proteins	SH3-like barrel	SH3-domain	SH3-domain	SH3-like domain of the L-type calcium channel	European rabbit,Japanese white rabbit,domestic rabbit,rabbits (Oryctolagus cuniculus ) [TaxId: 9986 ], European rabbit,Japanese white rabbit,domestic rabbit,rabbits (Oryctolagus cuniculus ) [TaxId: 9986 ],	SCOPe (2.08)
A	d4dexa2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	Nucleotide and nucleoside kinases	Guanylate kinase-like domain of the L-type calcium channel	European rabbit,Japanese white rabbit,domestic rabbit,rabbits (Oryctolagus cuniculus ) [TaxId: 9986 ], European rabbit,Japanese white rabbit,domestic rabbit,rabbits (Oryctolagus cuniculus ) [TaxId: 9986 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	SH3-domain	8058012	3000153	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8058013	3002021	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		e4dexA3	A: Fusion glycoprotein F2	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: SAWADEE	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	6.10.250.2500	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
A	2.30.30.40	Mainly Beta	Roll	SH3 type barrels.	SH3 Domains	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00625	Guanylate kinase (Guanylate_kin)	Guanylate kinase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Voltage-dependent N-type calcium channel subunit alpha-1B	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein phosphatase binding phosphatase binding protein binding enzyme binding protein phosphatase 2A binding calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein phosphatase binding phosphatase binding protein binding enzyme binding protein phosphatase 2A binding calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity high voltage-gated calcium channel activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding voltage-gated calcium channel activity involved in regulation of presynaptic cytosolic calcium levels voltage-gated calcium channel activity involved in regulation of cytosolic calcium levels	developmental process multicellular organism development multicellular organismal process nerve development cranial nerve development anatomical structure development optic nerve development nervous system development system development response to stimulus response to stress multicellular organismal response to stress response to pain heart process developmental process multicellular organism development multicellular organismal process nerve development cranial nerve development anatomical structure development optic nerve development nervous system development system development response to stimulus response to stress multicellular organismal response to stress response to pain heart 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 heart contraction blood circulation behavior locomotory behavior regulation of blood pressure regulation of biological quality regulation of calcium ion transport regulation of localization transport regulation of transport regulation of monoatomic ion transport establishment of localization metal ion transport calcium ion transport localization monoatomic ion transport regulation of metal ion transport monoatomic cation transport trans-synaptic signaling cellular localization neurotransmitter secretion signaling secretion cell-cell signaling export from cell neurotransmitter transport cell communication chemical synaptic transmission signal release from synapse synaptic signaling secretion by cell signal release anterograde trans-synaptic signaling establishment of localization in cell cellular process response to ketone response to lipid response to chemical response to oxygen-containing compound response to testosterone positive regulation of cell communication regulated exocytosis regulation of cellular process synaptic vesicle cycle positive regulation of neurotransmitter secretion synaptic vesicle exocytosis positive regulation of calcium ion-dependent exocytosis of neurotransmitter vesicle-mediated transport vesicle-mediated transport in synapse positive regulation of regulated secretory pathway calcium ion-regulated exocytosis of neurotransmitter positive regulation of neurotransmitter transport regulation of synaptic vesicle exocytosis positive regulation of synaptic transmission regulation of secretion exocytosis regulation of trans-synaptic signaling regulation of calcium ion-dependent exocytosis of neurotransmitter modulation of chemical synaptic transmission regulation of calcium ion-dependent exocytosis positive regulation of biological process positive regulation of secretion by cell positive regulation of exocytosis regulation of regulated secretory pathway regulation of secretion by cell positive regulation of secretion positive regulation of cellular process calcium-ion regulated exocytosis regulation of signaling positive regulation of calcium ion-dependent exocytosis positive regulation of synaptic vesicle exocytosis regulation of neurotransmitter transport regulation of vesicle-mediated transport positive regulation of transport regulation of neurotransmitter secretion regulation of exocytosis regulation of cell communication positive regulation of signaling response to alcohol response to ethanol import into cell calcium ion transmembrane import into cytosol monoatomic ion transmembrane transport import across plasma membrane inorganic cation import across plasma membrane monoatomic cation transmembrane transport transmembrane transport calcium ion import across plasma membrane inorganic ion import across plasma membrane calcium ion import calcium ion import into cytosol calcium ion transmembrane transport response to nitrogen compound response to amyloid-beta positive regulation of organelle organization membrane fusion vesicle organization regulation of calcium-dependent activation of synaptic vesicle fusion positive regulation of synaptic vesicle fusion to presynaptic active zone membrane regulation of synaptic vesicle membrane organization endomembrane system organization vesicle fusion to plasma membrane positive regulation of synaptic vesicle membrane organization regulation of organelle organization organelle fusion positive regulation of vesicle fusion vesicle fusion regulation of cellular component organization positive regulation of cellular component organization organelle membrane fusion calcium-dependent activation of synaptic vesicle fusion regulation of vesicle fusion cellular component organization cellular component organization or biogenesis membrane organization regulation of synaptic vesicle fusion to presynaptic active zone membrane synaptic vesicle fusion to presynaptic active zone membrane organelle organization synaptic vesicle membrane organization exocytic process response to phorbol 13-acetate 12-myristate	presynapse cellular anatomical structure synapse cell junction presynaptic active zone membrane cell periphery basal part of cell plasma membrane basal plasma membrane plasma membrane region basolateral plasma membrane intracellular anatomical structure cell leading edge presynapse cellular anatomical structure synapse cell junction presynaptic active zone membrane cell periphery basal part of cell plasma membrane basal plasma membrane plasma membrane region basolateral plasma membrane intracellular anatomical structure cell leading edge stereocilium bundle neuron projection leading edge membrane cluster of actin-based cell projections plasma membrane bounded cell projection neuron projection membrane cell projection stereocilium actin-based cell projection organelle stereocilium membrane cell projection membrane somatodendritic compartment dendrite dendritic tree protein-containing complex glutamatergic synapse neuron projection terminus dendritic shaft Schaffer collateral - CA1 synapse cell body neuronal cell body plasma membrane protein complex voltage-gated calcium channel complex membrane protein complex cation channel complex transporter complex transmembrane transporter complex calcium channel complex monoatomic ion channel complex axon axon terminus distal axon
A	Voltage-dependent L-type calcium channel subunit beta-2	cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity cytoskeletal protein binding actin binding protein-containing complex binding protein binding binding actin filament binding calcium channel activity monoatomic cation transmembrane transporter activity voltage-gated calcium channel activity gated channel activity monoatomic ion channel activity voltage-gated channel activity voltage-gated monoatomic ion channel activity voltage-gated monoatomic cation channel activity voltage-gated calcium channel activity involved in regulation of presynaptic cytosolic calcium levels monoatomic cation channel activity passive transmembrane transporter activity calcium ion transmembrane transporter activity voltage-gated calcium channel activity involved in regulation of cytosolic calcium levels channel activity monoatomic ion transmembrane transporter activity transporter activity metal ion transmembrane transporter activity transmembrane transporter activity high voltage-gated calcium channel activity voltage-gated calcium channel activity involved in cardiac muscle cell action potential voltage-gated calcium channel activity involved in AV node cell action 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 membrane depolarization during cardiac muscle cell action potential cardiac muscle contraction striated muscle contraction cell communication circulatory system process actin filament-based process regulation of multicellular organismal process 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 membrane depolarization during cardiac muscle cell action potential cardiac muscle contraction striated muscle contraction cell communication circulatory system process actin filament-based process regulation of multicellular organismal process regulation of biological quality 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 membrane depolarization during action potential biological regulation 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 membrane depolarization cellular process actin-mediated cell contraction heart contraction cardiac muscle cell action potential regulation of membrane potential regulation of localization regulation of calcium ion transport positive regulation of calcium ion transport transport regulation of transport regulation of monoatomic ion transport positive regulation of biological process establishment of localization calcium ion transport metal ion transport localization positive regulation of transport positive regulation of monoatomic ion transport monoatomic ion transport monoatomic cation transport regulation of metal ion transport calcium ion import trans-synaptic signaling synaptic signaling signaling anterograde trans-synaptic signaling cell-cell signaling chemical synaptic transmission sensory perception of light stimulus sensory perception nervous system process visual perception regulation of heart rate by cardiac conduction regulation of heart rate	protein-containing complex plasma membrane protein complex sarcolemma voltage-gated calcium channel complex plasma membrane membrane membrane protein complex cation channel complex transporter complex cell periphery cellular anatomical structure transmembrane transporter complex T-tubule L-type voltage-gated calcium channel complex protein-containing complex plasma membrane protein complex sarcolemma voltage-gated calcium channel complex plasma membrane membrane membrane protein complex cation channel complex transporter complex cell periphery cellular anatomical structure transmembrane transporter complex T-tubule L-type voltage-gated calcium channel complex calcium channel complex monoatomic ion channel complex photoreceptor ribbon synapse synapse cell junction ribbon synapse presynapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR014873	Voltage-dependent calcium channel, alpha-1 subunit, IQ domain	Domain
B	IPR002077	Voltage-dependent calcium channel, alpha-1 subunit	Family
B	IPR031649	Voltage-dependent L-type calcium channel, IQ-associated domain	Domain
B	IPR002048	EF-hand domain	Domain
B	IPR005821	Ion transport domain	Domain
B	IPR005447	Voltage-dependent calcium channel, N-type, alpha-1 subunit	Family
B	IPR050599	Voltage-dependent calcium channel alpha-1 subunit	Family
B	IPR027359	Voltage-dependent channel domain superfamily	Homologous Superfamily
A	IPR008145	Guanylate kinase/L-type calcium channel beta subunit	Domain
A	IPR005444	Voltage-dependent calcium channel, L-type, beta-2 subunit	Family
A	IPR035605	CACNB2, SH3 domain	Domain
A	IPR001452	SH3 domain	Domain
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR046937	Voltage-dependent L-type calcium channel subunit beta-1-4, N-terminal A domain	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR000584	Voltage-dependent calcium channel, L-type, beta subunit	Family

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.