4P42 | pdb_00004p42

Extended-Synaptotagmin 2, SMP - C2A - C2B Domains

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	PLC-like (P variant)	8046378	4002218	SCOP2 (2022-06-29)
A	SCOP2 Family	PLC-like (P variant)	8091394	4002218	SCOP2 (2022-06-29)
A	SCOP2 Family	SMP domain-like	8101160	4007813	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8091395	3000965	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8091396	3000965	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Aha1/BPI domain-like	8101161	3001851	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Aha1/BPI domain-like	8101161	3001851	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8091395	3000965	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8091396	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)
A	C2_1	e4p42A2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: C2 domain (From Topology)	T: C2 domain	F: C2_1	ECOD (1.6)
A	SMP_LBD	e4p42A1	A: a+b complex topology	X: Aha1/BPI domain-like (From Topology)	H: Aha1/BPI domain-like (From Topology)	T: Aha1/BPI domain-like	F: SMP_LBD	ECOD (1.6)
B	C2_1	e4p42B2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: C2 domain (From Topology)	T: C2 domain	F: C2_1	ECOD (1.6)
B	SMP_LBD	e4p42B3	A: a+b complex topology	X: Aha1/BPI domain-like (From Topology)	H: Aha1/BPI domain-like (From Topology)	T: Aha1/BPI domain-like	F: SMP_LBD	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	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 (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF17047	Synaptotagmin-like mitochondrial-lipid-binding domain (SMP_LBD)	Synaptotagmin-like mitochondrial-lipid-binding domain	SMP is a proposed lipid-binding module, ie a synaptotagmin-like mitochondrial-lipid-binding domain found in eukaryotes. The SMP domain has a beta-barrel structure like protein modules in the tubular-lipid-binding (TULIP) superfamily. It dimerises to ...	SMP is a proposed lipid-binding module, ie a synaptotagmin-like mitochondrial-lipid-binding domain found in eukaryotes. The SMP domain has a beta-barrel structure like protein modules in the tubular-lipid-binding (TULIP) superfamily. It dimerises to form an approximately 90-Angstrom-long cylinder traversed by a channel lined entirely with hydrophobic residues. The following two C2 domains then form arched structures flexibly linked to the SMP domain. The SMP domain is a lipid-binding domain that links the ER with other lipid bilayer-membranes within the cell [1].	Domain
A, B	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	Extended synaptotagmin-2	binding phospholipid binding lipid binding phosphatidylinositol binding cation binding ion binding calcium ion binding metal ion binding small molecule binding calcium-dependent phospholipid binding phosphatidylethanolamine binding cell adhesion molecule binding cadherin binding protein binding binding phospholipid binding lipid binding phosphatidylinositol binding cation binding ion binding calcium ion binding metal ion binding small molecule binding calcium-dependent phospholipid binding phosphatidylethanolamine binding cell adhesion molecule binding cadherin binding protein binding phosphatidylcholine binding quaternary ammonium group binding identical protein binding	localization import into cell transport cellular process endocytosis establishment of localization vesicle-mediated transport macromolecule localization lipid localization lipid transport endoplasmic reticulum-plasma membrane tethering membrane docking endoplasmic reticulum localization endoplasmic reticulum organization localization import into cell transport cellular process endocytosis establishment of localization vesicle-mediated transport macromolecule localization lipid localization lipid transport endoplasmic reticulum-plasma membrane tethering membrane docking endoplasmic reticulum localization endoplasmic reticulum organization cellular component organization organelle localization by membrane tethering organelle organization organelle localization cellular component organization or biogenesis endomembrane system organization	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane endoplasmic reticulum-plasma membrane contact site organelle membrane contact site organelle membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane endoplasmic reticulum-plasma membrane contact site organelle membrane contact site organelle membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR031468	Synaptotagmin-like mitochondrial-lipid-binding domain	Domain
A, B	IPR037752	Extended synaptotagmin, C-terminal C2 domain	Domain
A, B	IPR037749	Extended synaptotagmin, C2B domain	Domain
A, B	IPR000008	C2 domain	Domain
A, B	IPR039010	Synaptotagmin, SMP domain	Domain
A, B	IPR037733	Extended synaptotagmin, C2A domain	Domain
A, B	IPR035892	C2 domain superfamily	Homologous Superfamily
A, B	IPR051634	Extended Synaptotagmin	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: A0FGR8	swine influenza adenoma exocrine pancreatic carcinoma glioblastoma large cell medulloblastoma malignant pancreatic neoplasm non-small cell lung carcinoma ovarian cancer testicular germ cell tumor atypical teratoid rhabdoid tumor facioscapulohumeral muscular dystrophy invasive ductal breast carcinoma malignant ependymoma medulloblastoma oligodendroglioma swine influenza adenoma exocrine pancreatic carcinoma glioblastoma large cell medulloblastoma malignant pancreatic neoplasm non-small cell lung carcinoma ovarian cancer testicular germ cell tumor atypical teratoid rhabdoid tumor facioscapulohumeral muscular dystrophy invasive ductal breast carcinoma malignant ependymoma medulloblastoma oligodendroglioma pancreatic ductal adenocarcinoma cystic fibrosis gastric carcinoma juvenile dermatomyositis malignant glioma myopathy osteosarcoma

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM	Monotopic/peripheral	All beta monotopic/peripheral	C2 domain	C2 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.