4LCV | pdb_00004lcv

Crystal Structure of DOC2B C2A domain

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)
D	d4lcvd_	All beta proteins	C2 domain-like	C2 domain (Calcium/lipid-binding domain, CaLB)	automated matches	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d4lcvc_	All beta proteins	C2 domain-like	C2 domain (Calcium/lipid-binding domain, CaLB)	automated matches	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d4lcvb1	All beta proteins	C2 domain-like	C2 domain (Calcium/lipid-binding domain, CaLB)	automated matches	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d4lcvb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d4lcva_	All beta proteins	C2 domain-like	C2 domain (Calcium/lipid-binding domain, CaLB)	automated matches	automated matches	brown rat,rat,rats (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2 Family	Synaptotagmin-like (S variant)	8086446	4002234	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086447	3000965	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086447	3000965	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086447	3000965	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8086447	3000965	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)
D	Peptidase_C30	e4lcvD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Peptidase_C30	ECOD (v294.1)
C	Peptidase_C30	e4lcvC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Peptidase_C30	ECOD (v294.1)
B	Peptidase_C30	e4lcvB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Peptidase_C30	ECOD (v294.1)
A	Peptidase_C30	e4lcvA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Peptidase_C30	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)
C	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)
B	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)
A	2.60.40.150	Mainly Beta	Sandwich	Immunoglobulin-like	C2 domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00168	C2 domain (C2)	C2 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Double C2-like domain-containing protein beta	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding calcium-dependent phospholipid binding phospholipid binding lipid binding protein binding SNARE binding syntaxin binding	regulated exocytosis cellular localization transport signaling synaptic vesicle cycle synaptic vesicle exocytosis vesicle-mediated transport cell communication vesicle-mediated transport in synapse localization synaptic signaling secretion by cell signal release establishment of localization in cell regulated exocytosis cellular localization transport signaling synaptic vesicle cycle synaptic vesicle exocytosis vesicle-mediated transport cell communication vesicle-mediated transport in synapse localization synaptic signaling secretion by cell signal release establishment of localization in cell calcium-ion regulated exocytosis calcium ion-regulated exocytosis of neurotransmitter trans-synaptic signaling regulation of biological process neurotransmitter secretion secretion biological regulation export from cell cell-cell signaling neurotransmitter transport establishment of localization chemical synaptic transmission signal release from synapse exocytosis anterograde trans-synaptic signaling cellular process regulation of localization regulation of cellular process 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 regulated secretory pathway positive regulation of cellular process positive regulation of calcium ion-dependent exocytosis regulation of transport regulation of vesicle-mediated transport regulation of secretion positive regulation of transport regulation of exocytosis positive regulation of organelle organization membrane fusion vesicle organization 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 positive regulation of cell communication establishment of protein localization nitrogen compound transport positive regulation of establishment of protein localization positive regulation of insulin secretion intracellular protein localization regulation of biological quality regulation of peptide hormone secretion regulation of hormone levels positive regulation of peptide hormone secretion establishment of protein localization to extracellular region protein secretion regulation of protein secretion positive regulation of protein localization regulation of hormone secretion regulation of protein localization regulation of peptide secretion hormone secretion protein localization to extracellular region positive regulation of protein transport peptide secretion positive regulation of hormone secretion positive regulation of peptide secretion regulation of signaling regulation of peptide transport regulation of establishment of protein localization regulation of protein transport positive regulation of protein secretion peptide transport protein transport regulation of insulin secretion peptide hormone secretion macromolecule localization hormone transport regulation of cell communication insulin secretion positive regulation of signaling spontaneous synaptic transmission spontaneous neurotransmitter secretion	cellular anatomical structure synapse cell junction cell periphery plasma membrane membrane membrane-bounded organelle extrinsic component of synaptic vesicle membrane intracellular anatomical structure intracellular vesicle transport vesicle membrane extrinsic component of organelle membrane endomembrane system intracellular organelle cellular anatomical structure synapse cell junction cell periphery plasma membrane membrane membrane-bounded organelle extrinsic component of synaptic vesicle membrane intracellular anatomical structure intracellular vesicle transport vesicle membrane extrinsic component of organelle membrane endomembrane system intracellular organelle presynapse 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 organelle secretory vesicle cytoplasm organelle membrane extrinsic component of membrane exocytic vesicle glutamatergic synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR043566	Rabphilin/Doc2/Noc2	Family
A, B, C, D	IPR047022	Rabphilin/Doc2, first C2 domain	Domain
A, B, C, D	IPR014638	Double C2 protein, alpha/beta/gamma	Family
A, B, C, D	IPR000008	C2 domain	Domain
A, B, C, D	IPR035892	C2 domain superfamily	Homologous Superfamily
A, B, C, D	IPR001565	Synaptotagmin	Domain

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.