4ARZ | pdb_00004arz

The crystal structure of Gtr1p-Gtr2p complexed with GTP-GDP

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)
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)
A	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)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Vps4_C,AAA_lid_3	e4arzB4	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Vps4_C,AAA_lid_3	ECOD (develop294)
B	HypA	e4arzB2	A: alpha bundles	X: Ribosomal protein S7	H: HypA Ni-binding domain	T: HypA Ni-binding domain	F: HypA	ECOD (develop294)
A	DUF3228	e4arzA3	A: alpha bundles	X: POZ domain	H: POZ domain	T: POZ domain	F: DUF3228	ECOD (develop294)
A	HypA	e4arzA2	A: alpha bundles	X: Ribosomal protein S7	H: HypA Ni-binding domain	T: HypA Ni-binding domain	F: HypA	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.30.450.190	Alpha Beta	2-Layer Sandwich	Beta-Lactamase		CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.30.450.190	Alpha Beta	2-Layer Sandwich	Beta-Lactamase		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	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	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
B	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	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
B	IPR006762	Gtr1/RagA G protein	Family
B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B	IPR039400	RagC/D	Family
A	IPR039397	RagA/B	Family
A	IPR006762	Gtr1/RagA G protein	Family
A	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.