2B3R | pdb_00002b3r

Crystal structure of the C2 domain of class II phosphatidylinositide 3-kinase C2

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
Membrane Protein Annotation: OPM

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2b3rb1	All beta proteins	C2 domain-like	C2 domain (Calcium/lipid-binding domain, CaLB)	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2b3rb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2b3ra1	All beta proteins	C2 domain-like	C2 domain (Calcium/lipid-binding domain, CaLB)	automated matches	automated matches	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2b3ra2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8072601	3000965	SCOP2B (2022-06-29)
A	SCOP2 Family	Synaptotagmin-like (S variant)	8072600	4002234	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	C2 domain (calcium/lipid-binding domain, calb)	8072601	3000965	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	C2_2	e2b3rB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: C2 domain (From Topology)	T: C2 domain	F: C2_2	ECOD (1.6)
A	C2_2	e2b3rA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: C2 domain (From Topology)	T: C2 domain	F: C2_2	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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	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	Phosphatidylinositol-4-phosphate 3-kinase C2 domain-containing alpha polypeptide	binding phospholipid binding lipid binding phosphatidylinositol binding clathrin binding protein binding phosphatidylinositol kinase activity kinase activity lipid kinase activity transferase activity 1-phosphatidylinositol-4,5-bisphosphate 3-kinase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups binding phospholipid binding lipid binding phosphatidylinositol binding clathrin binding protein binding phosphatidylinositol kinase activity kinase activity lipid kinase activity transferase activity 1-phosphatidylinositol-4,5-bisphosphate 3-kinase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 1-phosphatidylinositol-3-kinase activity 1-phosphatidylinositol-4-phosphate 3-kinase activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding	phosphatidylinositol metabolic process glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phosphatidylinositol biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process phosphatidylinositol metabolic process glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phosphatidylinositol biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process phosphate-containing compound metabolic process metabolic process cellular process glycerolipid metabolic process phosphorus metabolic process lipid metabolic process localization import into cell transport endocytosis establishment of localization vesicle-mediated transport cellular response to stimulus cellular response to nutrient levels response to nutrient levels response to stimulus cellular response to stress response to stress response to starvation cellular response to starvation catabolic process macroautophagy autophagy process utilizing autophagic mechanism regulation of localization regulation of cellular process negative regulation of zinc ion transport negative regulation of monoatomic ion transport monoatomic ion transmembrane transport negative regulation of biological process negative regulation of transport regulation of monoatomic ion transmembrane transport metal ion transport negative regulation of transmembrane transport regulation of zinc ion transport monoatomic cation transmembrane transport negative regulation of monoatomic ion transmembrane transport negative regulation of cellular process monoatomic ion transport negative regulation of cation transmembrane transport negative regulation of zinc ion transmembrane transport monoatomic cation transport regulation of metal ion transport regulation of biological process regulation of transport regulation of monoatomic ion transport biological regulation zinc ion transport inorganic ion transmembrane transport inorganic cation transmembrane transport transmembrane transport regulation of zinc ion transmembrane transport regulation of transmembrane transport zinc ion transmembrane transport transition metal ion transport regulation of monoatomic cation transmembrane transport secretion by cell exocytosis secretion export from cell vacuole organization autophagosome organization cellular component organization organelle organization cellular component organization or biogenesis	membrane-bounded organelle cellular anatomical structure organelle vesicle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle clathrin-coated vesicle coated vesicle cytoplasm cell periphery plasma membrane membrane-bounded organelle cellular anatomical structure organelle vesicle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle clathrin-coated vesicle coated vesicle cytoplasm cell periphery plasma membrane membrane Golgi apparatus subcompartment Golgi apparatus organelle subcompartment endomembrane system trans-Golgi network nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR015433	Phosphatidylinositol kinase	Family
A, B	IPR016024	Armadillo-type fold	Homologous Superfamily
A, B	IPR002420	C2 phosphatidylinositol 3-kinase-type domain	Domain
A, B	IPR001683	Phox homology	Domain
A, B	IPR000008	C2 domain	Domain
A, B	IPR042133	Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit alpha, PX domain	Domain
A, B	IPR018936	Phosphatidylinositol 3/4-kinase, conserved site	Conserved Site
A, B	IPR000403	Phosphatidylinositol 3-/4-kinase, catalytic domain	Domain
A, B	IPR001263	Phosphoinositide 3-kinase, accessory (PIK) domain	Domain
A, B	IPR042236	Phosphoinositide 3-kinase, accessory (PIK) domain superfamily	Homologous Superfamily
A, B	IPR036940	Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily	Homologous Superfamily
A, B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B	IPR036871	PX domain superfamily	Homologous Superfamily
A, B	IPR000341	Phosphatidylinositol 3-kinase Ras-binding (PI3K RBD) domain	Domain
A, B	IPR035892	C2 domain superfamily	Homologous Superfamily
A, B	IPR037705	PI3K-C2-alpha, catalytic domain	Domain
A, B	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B	OPM				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.