6JWP | pdb_00006jwp

crystal structure of EGOC

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J	SCOP2B Superfamily	SNARE-like	8091556	3001113	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	SNARE-like	8091556	3001113	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Roadblock/LC7 domain-like	8093367	3001810	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8093365	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Roadblock/LC7 domain-like	8093367	3001810	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8093368	3002022	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Roadblock/LC7 domain-like	8093370	3001810	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8093368	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Roadblock/LC7 domain-like	8093370	3001810	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)
J	SLM4	e6jwpJ1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: SLM4	ECOD (1.6)
E	SLM4	e6jwpE1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: SLM4	ECOD (1.6)
I	DUF3215	e6jwpI1	A: a+b three layers	X: Profilin-like	H: YNR034W-A-like (From Topology)	T: YNR034W-A-like	F: DUF3215	ECOD (1.6)
D	DUF3215	e6jwpD1	A: a+b three layers	X: Profilin-like	H: YNR034W-A-like (From Topology)	T: YNR034W-A-like	F: DUF3215	ECOD (1.6)
G	Gtr1_RagA_C	e6jwpG2	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Gtr1_RagA_C	ECOD (1.6)
G	Gtr1_RagA_N	e6jwpG1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Gtr1_RagA_N	ECOD (1.6)
B	Gtr1_RagA_C	e6jwpB1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Gtr1_RagA_C	ECOD (1.6)
B	Gtr1_RagA_N	e6jwpB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Gtr1_RagA_N	ECOD (1.6)
F	Gtr1_RagA_C_1	e6jwpF1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Gtr1_RagA_C_1	ECOD (1.6)
F	Gtr1_RagA_N	e6jwpF2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Gtr1_RagA_N	ECOD (1.6)
A	Gtr1_RagA_C_1	e6jwpA1	A: a+b three layers	X: Profilin-like	H: profilin-like (From Topology)	T: profilin-like	F: Gtr1_RagA_C_1	ECOD (1.6)
A	Gtr1_RagA_N	e6jwpA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Gtr1_RagA_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
I	3.40.1840.10	Alpha Beta	3-Layer(aba) Sandwich	Profilin-like	YNR034W-A-like	CATH (utative)
D	3.40.1840.10	Alpha Beta	3-Layer(aba) Sandwich	Profilin-like	YNR034W-A-like	CATH (utative)
G	3.30.450.190	Alpha Beta	2-Layer Sandwich	Beta-Lactamase		CATH (utative)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
B	3.30.450.190	Alpha Beta	2-Layer Sandwich	Beta-Lactamase		CATH (utative)
F	3.30.450.190	Alpha Beta	2-Layer Sandwich	Beta-Lactamase		CATH (utative)
A	3.30.450.190	Alpha Beta	2-Layer Sandwich	Beta-Lactamase		CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E, J	PF16818	Protein SLM4 (SLM4)	Protein SLM4	The fungal protein SLM4 (EGO3, GSE1) is a component of the GSE complex and the EGO (TOR) complex . The GSE complex is required for trafficking GAP1 out of the endosome [1]. The EGO complex is involved in the regulation of autophagy and cell growth [2 ...	The fungal protein SLM4 (EGO3, GSE1) is a component of the GSE complex and the EGO (TOR) complex . The GSE complex is required for trafficking GAP1 out of the endosome [1]. The EGO complex is involved in the regulation of autophagy and cell growth [2]. SLM4 is required for the integrity and function of the EGO complex [2].	Domain
B, G	PF04670	Gtr1/RagA G protein conserved region (Gtr1_RagA)	Gtr1/RagA G protein conserved region	GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is ...	GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B [1,2,3,4].	Domain
A, F	PF04670	Gtr1/RagA G protein conserved region (Gtr1_RagA)	Gtr1/RagA G protein conserved region	GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is ...	GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B [1,2,3,4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, J	Protein SLM4	identical protein binding protein binding binding	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cellular process signal transduction cell communication cellular localization transport intracellular transport localization within membrane establishment of localization cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cellular process signal transduction cell communication cellular localization transport intracellular transport localization within membrane establishment of localization vesicle-mediated transport endocytic recycling endosomal transport vesicle-mediated transport to the plasma membrane localization establishment of localization in cell catabolic process autophagy microautophagy metabolic process process utilizing autophagic mechanism positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of TOR signaling positive regulation of cellular process TOR signaling regulation of signaling regulation of TOR signaling positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling establishment of protein localization nitrogen compound transport protein transport macromolecule localization intracellular protein localization	vacuolar membrane membrane-bounded organelle storage vacuole intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle fungal-type vacuole intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle vacuolar membrane membrane-bounded organelle storage vacuole intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle fungal-type vacuole intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane fungal-type vacuole membrane Ragulator complex protein-containing complex membrane protein complex guanyl-nucleotide exchange factor complex intracellular protein-containing complex endosome intracellular vesicle endomembrane system cytoplasmic vesicle late endosome vesicle endosome membrane late endosome membrane cytoplasmic vesicle membrane vesicle membrane
D, I	Ego2	-	localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization cellular response to stimulus TOR signaling regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization cellular response to stimulus TOR signaling regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication cellular process signal transduction TORC1 signaling catabolic process autophagy microautophagy metabolic process process utilizing autophagic mechanism positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process regulation of signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of TOR signaling positive regulation of cellular process regulation of signaling regulation of TOR signaling positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling	vacuolar membrane membrane-bounded organelle storage vacuole intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle fungal-type vacuole intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle vacuolar membrane membrane-bounded organelle storage vacuole intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle fungal-type vacuole intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane fungal-type vacuole membrane Ragulator complex protein-containing complex membrane protein complex guanyl-nucleotide exchange factor complex intracellular protein-containing complex
C, H	Protein MEH1	-	localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction localization protein localization to organelle macromolecule localization protein localization to vacuole intracellular protein localization cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling positive regulation of MAPK cascade biological regulation positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication cellular process positive regulation of signaling cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical cellular response to chemical stimulus response to chemical response to amino acid catabolic process autophagy microautophagy metabolic process process utilizing autophagic mechanism positive regulation of TOR signaling TOR signaling regulation of TOR signaling establishment of protein localization nitrogen compound transport protein transport transport establishment of localization cellular localization intracellular transport localization within membrane vesicle-mediated transport endocytic recycling endosomal transport vesicle-mediated transport to the plasma membrane establishment of localization in cell regulation of receptor recycling regulation of macromolecule metabolic process receptor recycling receptor metabolic process macromolecule metabolic process regulation of metabolic process homeostatic process intracellular pH reduction regulation of intracellular pH vacuolar acidification cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis regulation of pH monoatomic ion homeostasis intracellular chemical homeostasis regulation of biological quality monoatomic cation homeostasis regulation of cellular pH intracellular monoatomic ion homeostasis	vacuolar membrane membrane-bounded organelle storage vacuole intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle fungal-type vacuole intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle vacuolar membrane membrane-bounded organelle storage vacuole intracellular anatomical structure membrane lytic vacuole vacuole intracellular membrane-bounded organelle fungal-type vacuole intracellular organelle lytic vacuole membrane bounding membrane of organelle cellular anatomical structure organelle cytoplasm organelle membrane fungal-type vacuole membrane cytosol membrane microdomain membrane raft Ragulator complex protein-containing complex membrane protein complex guanyl-nucleotide exchange factor complex intracellular protein-containing complex endosome intracellular vesicle endomembrane system cytoplasmic vesicle late endosome vesicle endosome membrane late endosome membrane cytoplasmic vesicle membrane vesicle membrane
B, G	GTP-binding protein GTR2	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 pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress cellular process response to starvation positive regulation of cell communication regulation of cellular process positive regulation of signal transduction cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress cellular process response to starvation positive regulation of cell communication regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of TOR signaling signal transduction positive regulation of cellular process TOR signaling regulation of biological process regulation of signaling regulation of TOR signaling biological regulation positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling protein localization to vacuolar membrane localization cellular localization macromolecule localization protein localization to organelle protein localization to vacuole intracellular protein localization localization within membrane protein localization to membrane response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to oxidative stress cellular response to chemical stress positive regulation of TORC1 signaling regulation of TORC1 signaling TORC1 signaling cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid negative regulation of catabolic process catabolic process negative regulation of metabolic process autophagy negative regulation of biological process regulation of catabolic process regulation of autophagy negative regulation of autophagy negative regulation of cellular process metabolic process process utilizing autophagic mechanism regulation of metabolic process microautophagy positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription transport intracellular transport establishment of localization vesicle-mediated transport endocytic recycling endosomal transport vesicle-mediated transport to the plasma membrane establishment of localization in cell	membrane microdomain membrane raft cellular anatomical structure membrane Ragulator complex vacuolar membrane membrane-bounded organelle protein-containing complex intracellular anatomical structure membrane protein complex vacuole intracellular membrane-bounded organelle intracellular organelle bounding membrane of organelle membrane microdomain membrane raft cellular anatomical structure membrane Ragulator complex vacuolar membrane membrane-bounded organelle protein-containing complex intracellular anatomical structure membrane protein complex vacuole intracellular membrane-bounded organelle intracellular organelle bounding membrane of organelle organelle cytoplasm organelle membrane guanyl-nucleotide exchange factor complex intracellular protein-containing complex endosome membrane endosome intracellular vesicle late endosome membrane endomembrane system cytoplasmic vesicle membrane cytoplasmic vesicle vesicle membrane late endosome vesicle membraneless organelle intracellular membraneless organelle chromatin chromosome catalytic complex GTPase complex Gtr1-Gtr2 GTPase complex storage vacuole lytic vacuole fungal-type vacuole lytic vacuole membrane fungal-type vacuole membrane nucleus
A, F	GTP-binding protein GTR1	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 pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity identical protein binding protein binding	localization transport phosphate ion transport establishment of localization inorganic anion transport cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress localization transport phosphate ion transport establishment of localization inorganic anion transport cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress cellular process response to starvation positive regulation of cell communication regulation of cellular process positive regulation of signal transduction signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of TOR signaling signal transduction positive regulation of cellular process TOR signaling regulation of biological process regulation of signaling regulation of TOR signaling biological regulation positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling protein localization to vacuolar membrane cellular localization macromolecule localization protein localization to organelle protein localization to vacuole intracellular protein localization localization within membrane protein localization to membrane response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to oxidative stress cellular response to chemical stress positive regulation of TORC1 signaling regulation of TORC1 signaling TORC1 signaling subtelomeric heterochromatin formation negative regulation of biological process cellular component organization cellular component biogenesis cellular component assembly chromatin organization negative regulation of cellular process chromatin remodeling cellular component organization or biogenesis negative regulation of macromolecule metabolic process regulation of biosynthetic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression constitutive heterochromatin formation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process cellular response to acid chemical cellular response to amino acid stimulus response to acid chemical response to amino acid RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase I negative regulation of catabolic process catabolic process autophagy regulation of catabolic process regulation of autophagy negative regulation of autophagy process utilizing autophagic mechanism microautophagy transcription by RNA polymerase III intracellular transport vesicle-mediated transport endocytic recycling endosomal transport vesicle-mediated transport to the plasma membrane establishment of localization in cell	Ragulator complex vacuolar membrane membrane-bounded organelle protein-containing complex intracellular anatomical structure membrane membrane protein complex vacuole intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure bounding membrane of organelle organelle cytoplasm Ragulator complex vacuolar membrane membrane-bounded organelle protein-containing complex intracellular anatomical structure membrane membrane protein complex vacuole intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure bounding membrane of organelle organelle cytoplasm organelle membrane guanyl-nucleotide exchange factor complex intracellular protein-containing complex endosome membrane endosome intracellular vesicle late endosome membrane endomembrane system cytoplasmic vesicle membrane cytoplasmic vesicle vesicle membrane late endosome vesicle catalytic complex GTPase complex Gtr1-Gtr2 GTPase complex storage vacuole lytic vacuole fungal-type vacuole lytic vacuole membrane fungal-type vacuole membrane membraneless organelle intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E, J	IPR020233	GSE/EGO complex subunit Slm4	Family
D, I	IPR021591	YNR034W-A/EGO2	Family
D, I	IPR035098	YNR034W-A/EGO2 superfamily	Homologous Superfamily
C, H	IPR028209	LAMTOR1/MEH1	Family
B, G	IPR006762	Gtr1/RagA G protein	Family
B, G	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B, G	IPR039400	RagC/D	Family
A, F	IPR039397	RagA/B	Family
A, F	IPR006762	Gtr1/RagA G protein	Family
A, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	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.