1YZM | pdb_00001yzm

Structure of Rabenosyn (458-503), Rab4 binding domain

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d1yzma1	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)
A	d1yzma2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Rbsn	e1yzmA1	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	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	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	FYVE-finger-containing Rab5 effector protein rabenosyn-5	small GTPase binding protein binding binding enzyme binding GTPase binding phospholipid binding lipid binding phosphatidylinositol-3-phosphate binding phosphatidylinositol phosphate binding phosphatidylinositol binding cation binding transition metal ion binding zinc ion binding ion binding small GTPase binding protein binding binding enzyme binding GTPase binding phospholipid binding lipid binding phosphatidylinositol-3-phosphate binding phosphatidylinositol phosphate binding phosphatidylinositol 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 establishment of protein localization nitrogen compound transport protein transport macromolecule localization intracellular protein 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 early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle endosome membrane membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle endosome membrane 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	IPR036531	Rabenosyn, Rab binding domain superfamily	Homologous Superfamily
A	IPR013087	Zinc finger C2H2-type	Domain
A	IPR017455	Zinc finger, FYVE-related	Domain
A	IPR021565	Rabenosyn, Rab binding domain	Domain
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR052727	Rab4/Rab5 effector domain-containing protein	Family
A	IPR000306	FYVE zinc finger	Domain
A	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	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 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.