1Z0J

Structure of GTP-Bound Rab22Q64L GTPase in complex with the minimal Rab binding domain of Rabenosyn-5

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1z0ja1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	Rab-22a	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1z0ja2	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d1z0jb1	All alpha proteins	Long alpha-hairpin	Rabenosyn-5 Rab-binding domain-like	Rabenosyn-5 Rab-binding domain-like	FYVE finger-containing Rab5 effector protein rabenosyn-5	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Ras-like monodomain GTPases	8057289	4004043	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Ras-like P-loop GTPases	8057290	3002022	SCOP2 (2022-06-29)
B	SCOP2 Family	Rabenosyn-5 Rab-binding domain-like	8022688	4001066	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Rabenosyn-5 Rab-binding domain-like	8035068	3000644	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Ras	e1z0jA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
B	Rbsn	e1z0jB1	A: alpha bundles	X: Long alpha-hairpin	H: Rabenosyn-5 Rab-binding domain-like (From Topology)	T: Rabenosyn-5 Rab-binding domain-like	F: Rbsn	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	4.10.860.20	Few Secondary Structures	Irregular	DNA Excision Repair, Uvrb	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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, motil ...	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
B	PF11464	Rabenosyn Rab binding domain (Rbsn)	Rabenosyn Rab binding domain	Rabenosyn-5 (Rbsn) is a multivalent effector with interacts with the Rab family.Rsbn contains distinct Rab4 and Rab5 binding sites within residues 264-500 and 627-784 respectively [1]. Rab proteins are GTPases involved in the regulation of all stages ...	Rabenosyn-5 (Rbsn) is a multivalent effector with interacts with the Rab family.Rsbn contains distinct Rab4 and Rab5 binding sites within residues 264-500 and 627-784 respectively [1]. Rab proteins are GTPases involved in the regulation of all stages of membrane trafficking [1].	Domain
B	PF16601	Rabosyn-5 repeating NPF sequence-motif (NPF)	Rabosyn-5 repeating NPF sequence-motif	-	Disordered

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Ras-related protein Rab-22A	guanyl nucleotide binding binding nucleotide binding GDP binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding guanyl nucleotide binding binding nucleotide binding GDP binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GTP binding purine ribonucleoside triphosphate 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 component organization regulation of cellular component size regulation of vesicle size biological regulation cellular process cellular component organization or biogenesis regulation of biological quality regulation of anatomical structure size protein localization cellular localization establishment of protein localization nitrogen compound transport transport organic substance transport cellular component organization regulation of cellular component size regulation of vesicle size biological regulation cellular process cellular component organization or biogenesis regulation of biological quality regulation of anatomical structure size protein localization cellular localization establishment of protein localization nitrogen compound transport transport organic substance transport intracellular transport establishment of localization localization protein transport establishment of localization in cell cellular macromolecule localization macromolecule localization intracellular protein transport import into cell endocytosis vesicle-mediated transport vesicle organization organelle organization endosome organization endomembrane system organization	cellular anatomical entity endomembrane system membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle membrane cellular anatomical entity endomembrane system membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle membrane phagocytic vesicle phagocytic vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane endocytic vesicle membrane organelle membrane endocytic vesicle cytoskeleton intracellular non-membrane-bounded organelle actin cytoskeleton non-membrane-bounded organelle ruffle cell projection cell leading edge plasma membrane bounded cell projection endosome membrane cell periphery plasma membrane late endosome
B	FYVE-finger-containing Rab5 effector protein rabenosyn-5	small GTPase binding protein binding binding enzyme binding GTPase binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	cellular localization post-Golgi vesicle-mediated transport transport intracellular transport lysosomal transport establishment of localization vesicle-mediated transport localization Golgi to vacuole transport cytosolic transport establishment of localization in cell vacuolar transport cellular process Golgi to lysosome transport cellular localization post-Golgi vesicle-mediated transport transport intracellular transport lysosomal transport establishment of localization vesicle-mediated transport localization Golgi to vacuole transport cytosolic transport establishment of localization in cell vacuolar transport cellular process Golgi to lysosome transport Golgi vesicle transport early endosome to Golgi transport endosomal transport retrograde transport, endosome to Golgi protein localization establishment of protein localization nitrogen compound transport organic substance transport protein transport cellular macromolecule localization macromolecule localization regulation of biological process regulation of cellular component organization regulation of cellular process biological regulation regulation of organelle organization regulation of Golgi organization cellular component organization organelle organization cellular component organization or biogenesis Golgi organization endomembrane system organization	membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle endosome membrane early endosome membrane-bounded organelle intracellular anatomical structure endosome intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cytoplasm vesicle endosome membrane early endosome membrane early endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular space extracellular membrane-bounded organelle cytosol cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001806	Small GTPase	Family
A	IPR005225	Small GTP-binding protein domain	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B	IPR036531	Rabenosyn, Rab binding domain superfamily	Homologous Superfamily
B	IPR013087	Zinc finger C2H2-type	Domain
B	IPR017455	Zinc finger, FYVE-related	Domain
B	IPR021565	Rabenosyn, Rab binding domain	Domain
B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
B	IPR000306	FYVE zinc finger	Domain
B	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q9H1K0	atypical teratoid rhabdoid tumor large cell medulloblastoma subependymal giant cell astrocytoma glioblastoma osteosarcoma juvenile dermatomyositis ovarian cancer

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.