9DKP | pdb_00009dkp

The structure of human vacuolar protein sorting 34 catalytic domain bound to RD-I-53

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B]	PF00454	Phosphatidylinositol 3- and 4-kinase (PI3_PI4_kinase)	Phosphatidylinositol 3- and 4-kinase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	Phosphatidylinositol 3-kinase catalytic subunit type 3	phosphatidylinositol kinase activity kinase activity lipid kinase activity transferase activity catalytic activity 1-phosphatidylinositol-3-kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding phosphatidylinositol kinase activity kinase activity lipid kinase activity transferase activity catalytic activity 1-phosphatidylinositol-3-kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 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 catalytic activity, acting on a protein protein kinase activity	host-mediated activation of viral genome replication biological process involved in interspecies interaction between organisms host-mediated perturbation of viral genome replication host-mediated perturbation of viral process modulation of process of another organism host-mediated perturbation of symbiont process host-mediated activation of viral 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 host-mediated activation of viral genome replication biological process involved in interspecies interaction between organisms host-mediated perturbation of viral genome replication host-mediated perturbation of viral process modulation of process of another organism host-mediated perturbation of symbiont process host-mediated activation of viral 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 cellular component disassembly catabolic process protein-containing complex organization macroautophagy autophagy protein-containing complex disassembly cellular component organization autophagosome maturation cellular component organization or biogenesis process utilizing autophagic mechanism regulation of biological process regulation of cellular process biological regulation regulation of catabolic process regulation of autophagy regulation of macroautophagy regulation of metabolic process cell division 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 glucose starvation cellular response to starvation signaling intracellular signal transduction cell communication phosphatidylinositol-mediated signaling signal transduction regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cell division cell cycle regulation of cell cycle cell cycle process autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis localization organelle organization cellular component assembly macromolecule localization protein localization to phagophore assembly site intracellular protein localization vesicle organization endosome organization endomembrane system organization synaptic vesicle endocytosis import into cell cellular localization transport synaptic vesicle cycle establishment of localization vesicle-mediated transport presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle recycling establishment of localization in cell endocytosis intracellular signaling cassette phosphatidylinositol 3-kinase/protein kinase B signal transduction gene expression macromolecule biosynthetic process protein maturation proteolysis protein processing protein metabolic process macromolecule metabolic process autophagy of peroxisome pexophagy establishment of protein localization nitrogen compound transport protein targeting establishment of protein localization to vacuole lysosomal transport protein targeting to lysosome protein targeting to vacuole intracellular transport protein localization to vacuole protein localization to lysosome establishment of protein localization to organelle protein transport protein localization to organelle vacuolar transport intracellular protein transport regulation of protein modification process positive regulation of protein metabolic process lipoprotein biosynthetic process lipoprotein metabolic process positive regulation of biological process regulation of primary metabolic process protein lipidation positive regulation of metabolic process positive regulation of protein modification process positive regulation of lipoprotein metabolic process positive regulation of biosynthetic process positive regulation of protein lipidation regulation of lipoprotein metabolic process positive regulation of macromolecule metabolic process protein modification process positive regulation of cellular process regulation of biosynthetic process regulation of protein lipidation regulation of protein metabolic process regulation of macromolecule metabolic process macromolecule modification regulation of macromolecule biosynthetic process endosomal transport vesicle-mediated transport between endosomal compartments early endosome to late endosome transport response to acid chemical response to chemical response to oxygen-containing compound response to nitrogen compound response to amino acid response to L-leucine	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle cytoplasmic region plasma membrane bounded cell projection cytoplasm plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle cytoplasmic region plasma membrane bounded cell projection cytoplasm plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton organelle membraneless organelle cytoplasm cytosol phosphatidylinositol 3-kinase complex, class III, type II protein-containing complex catalytic complex membrane protein complex transferase complex phosphatidylinositol 3-kinase complex transferase complex, transferring phosphorus-containing groups phosphatidylinositol 3-kinase complex, class III extrinsic component of membrane synapse cell junction glutamatergic synapse vacuole autophagosome intracellular membrane-bounded organelle intracellular vesicle phagocytic vesicle phagocytic vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle cytoplasmic vesicle vesicle membrane endocytic vesicle membrane vesicle organelle membrane endocytic vesicle endosome postsynaptic endosome endomembrane system postsynapse peroxisome microbody autolysosome lytic vacuole secondary lysosome lysosome presynapse presynaptic endosome phagophore assembly site midbody GABA-ergic synapse phosphatidylinositol 3-kinase complex, class III, type I late endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B]	IPR016024	Armadillo-type fold	Homologous Superfamily
A [auth B]	IPR008290	Phosphatidylinositol 3-kinase, Vps34 type	Family
A [auth B]	IPR015433	Phosphatidylinositol 3-/4-kinase	Family
A [auth B]	IPR002420	C2 phosphatidylinositol 3-kinase-type domain	Domain
A [auth B]	IPR000403	Phosphatidylinositol 3-/4-kinase, catalytic domain	Domain
A [auth B]	IPR001263	Phosphoinositide 3-kinase, accessory (PIK) domain	Domain
A [auth B]	IPR018936	Phosphatidylinositol 3-/4-kinase, conserved site	Conserved Site
A [auth B]	IPR042236	Phosphoinositide 3-kinase, accessory (PIK) domain superfamily	Homologous Superfamily
A [auth B]	IPR036940	Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily	Homologous Superfamily
A [auth B]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A [auth B]	IPR035892	C2 domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth B]	Pharos: Q8NEB9	atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma malignant colon neoplasm medulloblastoma schizophrenia bipolar disorder intellectual disability lung adenocarcinoma malignant ependymoma osteosarcoma breast cancer invasive ductal breast carcinoma lung cancer malignant glioma atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma malignant colon neoplasm medulloblastoma schizophrenia bipolar disorder intellectual disability lung adenocarcinoma malignant ependymoma osteosarcoma breast cancer invasive ductal breast carcinoma lung cancer malignant glioma ovarian cancer

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.