Annotations: 9RX4

VPS34-CI bound to NRBF2 and RAB1A

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth L]	PF08961	Nuclear receptor-binding factor 2, autophagy regulator (NRBF2)	Nuclear receptor-binding factor 2, autophagy regulator	NRBF2 plays an essential role in autophagy, the cellular pathway that degrades long-lived proteins and other cytoplasmic contents through lysosomes. NRBF2 binds Atg14L - a Beclin-binding protein - directly via the MIT domain and enhances Atg14L-link ...	NRBF2 plays an essential role in autophagy, the cellular pathway that degrades long-lived proteins and other cytoplasmic contents through lysosomes. NRBF2 binds Atg14L - a Beclin-binding protein - directly via the MIT domain and enhances Atg14L-linked Vps34 kinase (a class III phosphatidylinositol-3 kinase) activity and autophagy induction [2].	Domain
G [auth L]	PF17169	MIT domain of nuclear receptor-binding factor 2 (NRBF2_MIT)	MIT domain of nuclear receptor-binding factor 2	This MIT domain is the microtubule interaction and trafficking of nuclear receptor-binding factor 2 - NRBF2 - in higher eukaryotes. It is a coiled-coil region at the N-terminus of Pfam:PF08961 [1]. NRBF2 plays an essential role in autophagy, the cell ...	This MIT domain is the microtubule interaction and trafficking of nuclear receptor-binding factor 2 - NRBF2 - in higher eukaryotes. It is a coiled-coil region at the N-terminus of Pfam:PF08961 [1]. NRBF2 plays an essential role in autophagy, the cellular pathway that degrades long-lived proteins and other cytoplasmic contents through lysosomes. NRBF2 binds Atg14L - a Beclin-binding protein - directly via the MIT domain and enhances Atg14L-linked Vps34 kinase (a class III phosphatidylinositol-3 kinase) activity and autophagy induction [2].	Domain
E	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motili ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain
D	PF10186	Vacuolar sorting 38 and autophagy-related subunit 14 (ATG14)	Vacuolar sorting 38 and autophagy-related subunit 14	-	Family
C, F [auth I]	PF04111	Apg6 BARA domain (APG6)	Apg6 BARA domain	In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells [1]. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the ...	In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells [1]. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [2]. This entry is the Beta-Alpha repeated, autophagy-specific (BARA) domain [3].	Domain
C, F [auth I]	PF17675	Apg6 coiled-coil region (APG6_N)	Apg6 coiled-coil region	-	Coiled-coil
B	PF22956	PIK3R4-like, middle domain (PIK3R4-like_middle)	PIK3R4-like, middle domain	-	Repeat
B	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain		Domain
B	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
A	PF00613	Phosphoinositide 3-kinase family, accessory domain (PIK domain) (PI3Ka)	Phosphoinositide 3-kinase family, accessory domain (PIK domain)	-	Repeat
A	PF00792	Phosphoinositide 3-kinase C2 (PI3K_C2)	Phosphoinositide 3-kinase C2	Phosphoinositide 3-kinase region postulated to contain a C2 domain. Outlier of Pfam:PF00168 family.	Domain
A	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
G [auth L]	Nuclear receptor-binding factor 2	-	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process cellular response to stimulus cellular response to stress response to stimulus response to stress response to endoplasmic reticulum stress catabolic process autophagy process utilizing autophagic mechanism	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle vacuole autophagosome phosphatidylinositol 3-kinase complex transferase complex, transferring phosphorus-containing groups membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure cytoplasmic vesicle organelle intracellular vesicle cytoplasm intracellular membrane-bounded organelle vesicle vacuole autophagosome phosphatidylinositol 3-kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex membrane membrane protein complex phosphatidylinositol 3-kinase complex, class III transferase complex extrinsic component of membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
E	Ras-related protein Rab-1A	binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cell adhesion molecule binding cadherin binding protein binding pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity cation binding metal ion binding	virion assembly viral process viral life cycle autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly virion assembly viral process viral life cycle autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular process metabolic process cellular component organization or biogenesis process utilizing autophagic mechanism regulation of biological process regulation of cellular process positive regulation of glycoprotein metabolic process positive regulation of protein metabolic process regulation of protein metabolic process biological regulation positive regulation of biological process carbohydrate derivative metabolic process primary metabolic process regulation of macromolecule metabolic process glycoprotein metabolic process regulation of primary metabolic process regulation of glycoprotein metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process protein metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process establishment of organelle localization vesicle cytoskeletal trafficking vesicle localization cellular localization organelle transport along microtubule transport establishment of vesicle localization intracellular transport establishment of localization vesicle transport along microtubule localization organelle localization establishment of localization in cell microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process import into cell endocytosis vesicle-mediated transport cell adhesion substrate adhesion-dependent cell spreading cell-substrate adhesion endoplasmic reticulum to Golgi vesicle-mediated transport intercellular transport Golgi vesicle transport cell migration cell motility defense response to bacterium biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response response to bacterium response to stress response to external stimulus response to external biotic stimulus response to biotic stimulus multicellular organismal process positive regulation of interleukin-8 production positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process cytokine production regulation of cytokine production regulation of multicellular organismal process regulation of biosynthetic process interleukin-8 production gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process positive regulation of cytokine production regulation of interleukin-8 production establishment of protein localization protein transport macromolecule localization intracellular protein localization intracellular protein transport establishment of melanosome localization cellular pigmentation pigment granule transport establishment of pigment granule localization pigmentation pigment granule localization melanosome transport melanosome localization membrane organization vesicle budding from membrane vesicle cargo loading vesicle organization COPII-coated vesicle cargo loading COPII-coated vesicle budding growth hormone secretion nitrogen compound transport secretion signaling regulation of hormone levels cell-cell signaling export from cell hormone secretion cell communication peptide transport peptide secretion secretion by cell peptide hormone secretion signal release hormone transport regulation of biological quality Golgi organization endomembrane system organization	cellular anatomical structure endomembrane system membrane-bounded organelle intracellular anatomical structure pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cytoplasmic vesicle organelle cytoplasm vesicle extracellular exosome cellular anatomical structure endomembrane system membrane-bounded organelle intracellular anatomical structure pigment granule intracellular vesicle intracellular membrane-bounded organelle intracellular organelle melanosome cytoplasmic vesicle organelle cytoplasm vesicle extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular membrane-bounded organelle cytosol early endosome endosome Golgi apparatus Golgi membrane membrane bounding membrane of organelle organelle membrane transport vesicle transport vesicle membrane cytoplasmic vesicle membrane vesicle membrane endoplasmic reticulum
D	Beclin 1-associated autophagy-related key regulator	protein binding binding enzyme binding GTPase binding enzyme regulator activity molecular function regulator activity phosphatidylinositol 3-kinase regulator activity kinase regulator activity protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity phosphatidylinositol 3-kinase inhibitor activity	cellular localization transport endosome to lysosome transport intracellular transport lysosomal transport establishment of localization vesicle-mediated transport localization intercellular transport establishment of localization in cell cellular process vacuolar transport glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process cellular localization transport endosome to lysosome transport intracellular transport lysosomal transport establishment of localization vesicle-mediated transport localization intercellular transport establishment of localization in cell cellular process vacuolar transport glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process metabolic 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 cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication intracellular signaling cassette signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of catabolic process regulation of autophagy regulation of macroautophagy regulation of metabolic process autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis organelle organization cellular component assembly cellular response to nutrient levels response to nutrient levels cellular response to stress response to stress response to starvation cellular response to glucose starvation cellular response to starvation regulation of protein complex stability regulation of biological quality membrane docking organelle localization by membrane tethering organelle localization autophagosome membrane docking regulation of protein modification process regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process regulation of primary metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process protein metabolic process protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process regulation of macromolecule metabolic process negative regulation of protein phosphorylation macromolecule modification regulation of phosphorylation macromolecule metabolic process negative regulation of phosphorylation response to mitochondrial depolarisation regulation of biosynthetic process gene expression macromolecule biosynthetic process post-transcriptional regulation of gene expression regulation of gene expression regulation of macromolecule biosynthetic process positive regulation of phosphorylation positive regulation of protein metabolic process positive regulation of biological process positive regulation of phosphate metabolic process positive regulation of metabolic process positive regulation of protein modification process positive regulation of macromolecule metabolic process positive regulation of protein phosphorylation positive regulation of cellular process establishment of protein localization protein targeting establishment of protein localization to vacuole protein localization to vacuole protein localization to lysosome establishment of protein localization to organelle protein transport protein targeting to lysosome protein localization to organelle macromolecule localization intracellular protein localization protein targeting to vacuole intracellular protein transport mitophagy autophagy of mitochondrion endosomal transport vesicle-mediated transport between endosomal compartments early endosome to late endosome transport	organelle membrane contact site cellular anatomical structure organelle mitochondria-associated endoplasmic reticulum membrane contact site membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton organelle membrane contact site cellular anatomical structure organelle mitochondria-associated endoplasmic reticulum membrane contact site membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton membraneless organelle cytoplasm cytosol intracellular vesicle phagocytic vesicle intracellular membrane-bounded organelle cytoplasmic vesicle vesicle endocytic vesicle phagophore assembly site membrane membrane phagophore assembly site phosphatidylinositol 3-kinase complex transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex membrane protein complex phosphatidylinositol 3-kinase complex, class III transferase complex extrinsic component of membrane extrinsic component of organelle membrane extrinsic component of phagophore assembly site membrane organelle membrane organelle subcompartment endomembrane system endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane vacuole autophagosome vacuolar membrane autophagosome membrane bounding membrane of organelle extrinsic component of omegasome membrane omegasome membrane omegasome
C, F [auth I]	Beclin-1	phosphatidylinositol 3-kinase binding protein binding binding protein-macromolecule adaptor activity molecular adaptor activity ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding identical protein binding GTPase binding kinase binding protein kinase binding	cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cellular response to stimulus cytoplasmic pattern recognition receptor signaling pathway regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus intracellular receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus intracellular signal transduction cell communication positive regulation of response to stimulus immune response-activating signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway positive regulation of immune response regulation of response to stress response to stress innate immune response regulation of immune system process response to external biotic stimulus signal transduction positive regulation of immune system process innate immune response-activating signaling pathway regulation of biological process positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response biological regulation defense response to symbiont response to external stimulus regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response cellular process activation of immune response response to chemical response to xenobiotic stimulus p38MAPK cascade intracellular signaling cassette MAPK cascade cellular response to metal ion cellular response to chemical stimulus response to metal ion response to aluminum ion cellular response to aluminum ion glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process metabolic 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 catabolic process regulation of autophagy regulation of macroautophagy regulation of metabolic process cell division cellular response to nutrient levels response to nutrient levels cellular response to stress response to starvation cellular response to glucose starvation cellular response to starvation mitotic nuclear division mitotic metaphase chromosome alignment organelle fission chromosome organization sister chromatid segregation mitotic cell cycle metaphase chromosome alignment localization organelle organization nuclear division mitotic cell cycle process chromosome localization organelle localization nuclear chromosome segregation mitotic sister chromatid segregation cell cycle chromosome segregation cell cycle process apoptotic process cell death programmed cell death response to mitochondrial depolarisation response to iron(II) ion response to iron ion negative regulation of programmed cell death negative regulation of cellular process negative regulation of biological process regulation of programmed cell death regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cell division regulation of cell cycle JNK cascade positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction regulation of intrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway regulation of intracellular signal transduction intrinsic apoptotic signaling pathway positive regulation of cellular process regulation of signaling positive regulation of programmed cell death regulation of apoptotic process positive regulation of intracellular signal transduction positive regulation of apoptotic process apoptotic signaling pathway regulation of cell communication positive regulation of intrinsic apoptotic signaling pathway regulation of apoptotic signaling pathway positive regulation of signaling response to decreased oxygen levels response to hypoxia response to oxygen levels response to abiotic stimulus cellular defense response response to nutrient response to oxygen-containing compound response to vitamin E response to vitamin positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization positive regulation of vacuole organization autophagosome organization cellular component biogenesis positive regulation of metabolic process cellular component assembly positive regulation of autophagosome assembly 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 vacuole organization regulation of cellular component biogenesis regulation of organelle organization positive regulation of catabolic process regulation of organelle assembly positive regulation of organelle assembly cellular response to amino acid starvation response to amino acid starvation defense response to virus response to virus receptor catabolic process receptor metabolic process macromolecule metabolic process macromolecule catabolic process cellular localization transport intracellular transport establishment of localization vesicle-mediated transport intercellular transport late endosome to vacuole transport establishment of localization in cell vacuolar transport protein-containing complex assembly negative regulation of lysosome organization negative regulation of cellular component organization lytic vacuole organization lysosome organization negative regulation of organelle organization regulation of lysosome organization rhythmic process circadian rhythm cellular response to nitrogen levels cellular response to nitrogen starvation negative regulation of apoptotic process stress granule assembly membraneless organelle assembly positive regulation of stress granule assembly regulation of stress granule assembly regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction response to copper ion cellular response to copper ion cellular response to oxidative stress cellular response to chemical stress cellular response to oxygen-containing compound cellular response to hydrogen peroxide response to reactive oxygen species response to hydrogen peroxide response to oxidative stress cellular response to reactive oxygen species response to lead ion cell surface receptor protein serine/threonine kinase signaling pathway cell surface receptor signaling pathway SMAD protein signal transduction enzyme-linked receptor protein signaling pathway establishment of protein localization protein targeting establishment of protein localization to vacuole protein localization to vacuole lysosomal transport protein localization to lysosome establishment of protein localization to organelle protein transport protein targeting to lysosome protein localization to organelle macromolecule localization intracellular protein localization protein targeting to vacuole intracellular protein transport cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to epidermal growth factor stimulus response to epidermal growth factor response to growth factor mitophagy autophagy of mitochondrion endosomal transport vesicle-mediated transport between endosomal compartments early endosome to late endosome transport membrane organization import into cell engulfment of apoptotic cell phagocytosis, engulfment membrane invagination phagocytosis apoptotic cell clearance endocytosis plasma membrane invagination cellular response to oxygen levels cellular response to decreased oxygen levels cellular response to oxygen-glucose deprivation response to oxygen-glucose deprivation regulation of localization regulation of chromosome segregation regulation of attachment of mitotic spindle microtubules to kinetochore regulation of attachment of spindle microtubules to kinetochore positive regulation of cell cycle process positive regulation of chromosome segregation attachment of spindle microtubules to kinetochore attachment of mitotic spindle microtubules to kinetochore positive regulation of attachment of spindle microtubules to kinetochore regulation of chromosome organization positive regulation of cell cycle regulation of mitotic sister chromatid segregation regulation of sister chromatid segregation positive regulation of attachment of mitotic spindle microtubules to kinetochore regulation of metaphase plate congression	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol phosphatidylinositol 3-kinase complex, class III, type II protein-containing complex catalytic complex membrane 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 cellular anatomical structure intracellular anatomical structure cytoplasm cytosol phosphatidylinositol 3-kinase complex, class III, type II protein-containing complex catalytic complex membrane 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 somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection membrane-bounded organelle intracellular organelle organelle vacuole autophagosome intracellular membrane-bounded organelle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment endomembrane system trans-Golgi network endosome membrane endosome intracellular vesicle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle vesicle organelle membrane phagophore assembly site phagocytic vesicle endocytic vesicle mitochondrial membrane mitochondrion cytoplasmic side of membrane organelle outer membrane cytoplasmic side of mitochondrial outer membrane side of membrane organelle envelope mitochondrial envelope mitochondrial outer membrane outer membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum endoplasmic reticulum membrane phosphatidylinositol 3-kinase complex, class III, type I nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular organelle lumen nuclear body nucleoplasm organelle lumen membraneless organelle nuclear lumen
B	Phosphoinositide 3-kinase regulatory subunit 4	catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine 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 catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine 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 protein serine/threonine kinase activity	cellular localization transport intracellular transport establishment of localization vesicle-mediated transport localization intercellular transport late endosome to vacuole transport establishment of localization in cell cellular process vacuolar transport glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process cellular localization transport intracellular transport establishment of localization vesicle-mediated transport localization intercellular transport late endosome to vacuole transport establishment of localization in cell cellular process vacuolar transport glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process metabolic 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 cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication intracellular signaling cassette signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of catabolic process regulation of autophagy regulation of macroautophagy regulation of metabolic process cellular response to nutrient levels response to nutrient levels cellular response to stress response to stress response to starvation cellular response to glucose starvation cellular response to starvation autophagy of peroxisome pexophagy regulation of cytokinesis regulation of cell cycle process cytokinesis regulation of cell division cell division cell cycle regulation of cell cycle cell cycle process establishment of protein localization protein targeting establishment of protein localization to vacuole protein localization to vacuole establishment of protein localization to organelle protein transport protein localization to organelle macromolecule localization intracellular protein localization protein targeting to vacuole intracellular protein transport protein phosphorylation phosphorylation macromolecule modification phosphate-containing compound metabolic process protein metabolic process macromolecule metabolic process protein modification process lysosomal transport protein localization to lysosome protein targeting to lysosome endosomal transport vesicle-mediated transport between endosomal compartments early endosome to late endosome transport receptor catabolic process receptor metabolic process macromolecule catabolic process	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton organelle membraneless organelle cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton organelle membraneless organelle cytoplasm nucleus-vacuole junction organelle membrane contact site 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 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 phosphatidylinositol 3-kinase complex, class III, type I endosome endomembrane system late endosome
A	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	glycerophospholipid biosynthetic process phosphatidylinositol-3-phosphate biosynthetic process glycerophospholipid metabolic process lipid biosynthetic process primary metabolic process phosphatidylinositol phosphate biosynthetic process phospholipid biosynthetic process phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic process metabolic process cellular 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 phospholipid metabolic process biosynthetic process glycerolipid biosynthetic process organophosphate metabolic process organophosphate biosynthetic 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 vesicle organization organelle organization endosome organization endomembrane system organization regulation of immune effector process lymphocyte mediated immunity positive regulation of leukocyte mediated immunity positive regulation of response to biotic stimulus response to biotic stimulus positive regulation of leukocyte mediated cytotoxicity positive regulation of immune response positive regulation of natural killer cell mediated immunity leukocyte mediated immunity regulation of immune system process natural killer cell mediated immunity positive regulation of immune system process regulation of natural killer cell mediated immunity immune response response to other organism regulation of innate immune response response to external stimulus leukocyte mediated cytotoxicity immune effector process regulation of leukocyte mediated immunity regulation of response to stimulus defense response to other organism positive regulation of defense response natural killer cell mediated cytotoxicity regulation of immune response positive regulation of natural killer cell mediated cytotoxicity regulation of cell killing positive regulation of cell killing regulation of defense response regulation of response to biotic stimulus regulation of natural killer cell mediated cytotoxicity biological process involved in interspecies interaction between organisms regulation of response to external stimulus positive regulation of lymphocyte mediated immunity positive regulation of biological process positive regulation of response to stimulus positive regulation of response to external stimulus regulation of response to stress innate immune response positive regulation of immune effector process response to external biotic stimulus positive regulation of cellular process positive regulation of innate immune response defense response regulation of leukocyte mediated cytotoxicity defense response to symbiont regulation of lymphocyte mediated immunity immune system process cell killing 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 localization establishment of localization in cell endocytosis intracellular signaling cassette phosphatidylinositol 3-kinase/protein kinase B signal transduction autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis cellular component assembly gene expression macromolecule biosynthetic process protein maturation proteolysis protein processing protein metabolic process macromolecule metabolic process autophagy of peroxisome pexophagy host-mediated activation of viral genome replication 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 establishment of protein localization protein targeting establishment of protein localization to vacuole intracellular transport protein localization to vacuole lysosomal transport protein localization to lysosome establishment of protein localization to organelle protein transport protein targeting to lysosome protein localization to organelle macromolecule localization vacuolar transport intracellular protein localization protein targeting to vacuole intracellular protein transport regulation of protein modification process positive regulation of protein metabolic process lipoprotein biosynthetic process lipoprotein metabolic 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 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 intercellular transport 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 plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton organelle membraneless organelle cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium intracellular membraneless organelle 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 cell periphery plasma membrane GABA-ergic synapse phosphatidylinositol 3-kinase complex, class III, type I late endosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth L]	IPR039679	Nuclear receptor-binding factor 2	Family
G [auth L]	IPR015056	Nuclear receptor-binding factor 2, C-terminal	Domain
G [auth L]	IPR033393	Nuclear receptor-binding factor 2, MIT domain	Domain
E	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
E	IPR005225	Small GTP-binding domain	Domain
E	IPR001806	Small GTPase	Family
E	IPR050227	Ras-related protein Rab	Family
E	IPR057289	Rab1/Ypt1	Family
D	IPR018791	UV radiation resistance protein/autophagy-related protein 14	Family
C, F [auth I]	IPR038274	Atg6/Beclin C-terminal domain superfamily	Homologous Superfamily
C, F [auth I]	IPR029318	Beclin-1, BH3 domain	Domain
C, F [auth I]	IPR040455	Atg6, BARA domain	Domain
C, F [auth I]	IPR007243	Atg6/Beclin	Family
C, F [auth I]	IPR041691	Atg6/beclin, coiled-coil domain	Domain
B	IPR016024	Armadillo-type fold	Homologous Superfamily
B	IPR021133	HEAT, type 2	Repeat
B	IPR011989	Armadillo-like helical	Homologous Superfamily
B	IPR000719	Protein kinase domain	Domain
B	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B	IPR055231	PIK3R4-like, middle domain	Domain
B	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
B	IPR001680	WD40 repeat	Repeat
B	IPR045162	Serine/threonine-protein kinase Vps15-like	Family
B	IPR008271	Serine/threonine-protein kinase, active site	Active Site
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR057756	Phosphatidylinositol 3-kinase type3/VPS34-like	Domain
A	IPR008290	Phosphatidylinositol 3-kinase, Vps34 type	Family
A	IPR015433	Phosphatidylinositol 3-/4-kinase	Family
A	IPR002420	C2 phosphatidylinositol 3-kinase-type domain	Domain
A	IPR000403	Phosphatidylinositol 3-/4-kinase, catalytic domain	Domain
A	IPR001263	Phosphoinositide 3-kinase, accessory (PIK) domain	Domain
A	IPR018936	Phosphatidylinositol 3-/4-kinase, conserved site	Conserved Site
A	IPR042236	Phosphoinositide 3-kinase, accessory (PIK) domain superfamily	Homologous Superfamily
A	IPR036940	Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily	Homologous Superfamily
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A	IPR035892	C2 domain superfamily	Homologous Superfamily

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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.

9RX4 | pdb_00009rx4

VPS34-CI bound to NRBF2 and RAB1A

External Resource: Annotation

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage