2JU0 | pdb_00002ju0

Structure of Yeast Frequenin bound to PdtIns 4-kinase

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	d2ju0a_	All alpha proteins	EF Hand-like	EF-hand	Calmodulin-like	Frequenin (neuronal calcium sensor 1)	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	EF-hand	8037369	3001983	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	EF-hand_7_2	e2ju0A1	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_7_2	ECOD (1.6)
A	EF-hand_7_10	e2ju0A2	A: alpha arrays	X: EF-hand	H: EF-hand-related	T: EF-hand	F: EF-hand_7_10	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	6.10.140.1260	Special	Helix non-globular	Helix Hairpins		CATH (4.2.0)
A	1.10.238.10	Mainly Alpha	Orthogonal Bundle	Recoverin	domain 1	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF11522	Yeast phosphatidylinositol-4-OH kinase Pik1 (Pik1)	Yeast phosphatidylinositol-4-OH kinase Pik1	-	Family
A	PF00036	EF hand domain (EF-hand_1)	EF hand domain	The EF-hands can be divided into two classes: signalling proteins and buffering/transport proteins. The first group is the largest and includes the most well-known members of the family such as calmodulin, troponin C and S100B. These proteins typica ...	The EF-hands can be divided into two classes: signalling proteins and buffering/transport proteins. The first group is the largest and includes the most well-known members of the family such as calmodulin, troponin C and S100B. These proteins typically undergo a calcium-dependent conformational change which opens a target binding site. The latter group is represented by calbindin D9k and do not undergo calcium dependent conformational changes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Phosphatidylinositol 4-kinase PIK1	binding 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 binding 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 1-phosphatidylinositol 4-kinase activity phosphatidylinositol kinase activity kinase activity lipid kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication phosphatidylinositol-mediated signaling cellular process signal transduction positive regulation of protein localization to plasma membrane regulation of localization Golgi to plasma membrane transport cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication phosphatidylinositol-mediated signaling cellular process signal transduction positive regulation of protein localization to plasma membrane regulation of localization Golgi to plasma membrane transport establishment of protein localization cellular localization nitrogen compound transport post-Golgi vesicle-mediated transport regulation of protein localization transport positive regulation of biological process establishment of protein localization to plasma membrane positive regulation of establishment of protein localization Golgi to plasma membrane protein transport vesicle-mediated transport positive regulation of protein transport localization intracellular protein localization regulation of protein localization to membrane positive regulation of cellular process positive regulation of protein localization to cell periphery positive regulation of Golgi to plasma membrane protein transport protein localization to cell periphery regulation of transport protein localization to plasma membrane establishment of protein localization to membrane regulation of establishment of protein localization positive regulation of protein localization to membrane regulation of protein transport regulation of protein localization to cell periphery localization within membrane protein localization to membrane regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport to the plasma membrane positive regulation of transport regulation of Golgi to plasma membrane protein transport protein transport regulation of cellular localization macromolecule localization positive regulation of protein localization regulation of protein localization to plasma membrane Golgi vesicle transport positive regulation of secretion by cell protein localization to extracellular region regulation of secretion by cell secretion by cell positive regulation of secretion secretion establishment of protein localization to extracellular region export from cell protein secretion positive regulation of protein secretion regulation of protein secretion regulation of secretion response to nutrient levels cellular response to nitrogen levels cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress response to starvation phosphatidylinositol metabolic process glycerophospholipid 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 glycerolipid metabolic process phosphorus metabolic process lipid metabolic process import into cell endocytosis catabolic process autophagy microlipophagy microautophagy process utilizing autophagic mechanism positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization macroautophagy positive regulation of vacuole organization autophagosome organization regulation of autophagy cellular component biogenesis cellular component organization positive regulation of metabolic process cellular component assembly positive regulation of autophagosome assembly cellular component organization or biogenesis positive regulation of macroautophagy positive regulation of autophagy autophagosome assembly organelle assembly vacuole organization positive regulation of cellular component biogenesis regulation of autophagosome assembly regulation of catabolic process regulation of vacuole organization regulation of cellular component biogenesis regulation of organelle organization positive regulation of catabolic process organelle organization regulation of macroautophagy regulation of organelle assembly regulation of metabolic process positive regulation of organelle assembly	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle trans-Golgi network cytoplasm nucleus
A	Calcium-binding protein NCS-1	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity	cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process response to stimulus signaling biological regulation regulation of signal transduction cell communication regulation of response to stimulus regulation of cell communication cellular process signal transduction	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery cellular bud plasma membrane membrane cellular bud membrane membrane-bounded organelle intracellular organelle organelle intracellular membrane-bounded organelle Golgi membrane cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery cellular bud plasma membrane membrane cellular bud membrane membrane-bounded organelle intracellular organelle organelle intracellular membrane-bounded organelle Golgi membrane Golgi apparatus endomembrane system bounding membrane of organelle organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR015433	Phosphatidylinositol 3-/4-kinase	Family
B	IPR016024	Armadillo-type fold	Homologous Superfamily
B	IPR021601	Phosphatidylinositol 4-kinase, Pik1, fungi	Family
B	IPR018936	Phosphatidylinositol 3-/4-kinase, conserved site	Conserved Site
B	IPR042236	Phosphoinositide 3-kinase, accessory (PIK) domain superfamily	Homologous Superfamily
B	IPR036940	Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily	Homologous Superfamily
B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
B	IPR049160	PI4KB/PIK1, accessory domain	Domain
B	IPR000403	Phosphatidylinositol 3-/4-kinase, catalytic domain	Domain
B	IPR001263	Phosphoinositide 3-kinase, accessory (PIK) domain	Domain
A	IPR028846	Recoverin family	Family
A	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A	IPR002048	EF-hand domain	Domain
A	IPR011992	EF-hand domain pair	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.