8CUK | pdb_00008cuk

X-ray Structure of the WD40 domain of HOPS subunit Vps11 from Yeast

External Resource: Annotation

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

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (utative)
C	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (utative)
B	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF23341	PEP5/VPS11 N-terminal (PEP5_VPS11_N)	PEP5/VPS11 N-terminal	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	E3 ubiquitin-protein ligase PEP5	aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity protein-macromolecule adaptor activity molecular adaptor activity cation binding transition metal ion binding zinc ion binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity protein-macromolecule adaptor activity molecular adaptor activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	localization cellular localization late endosome to vacuole transport transport establishment of localization in cell cellular process vacuolar transport intracellular transport establishment of localization vesicle-mediated transport secretion export from cell membrane docking organelle localization by membrane tethering localization cellular localization late endosome to vacuole transport transport establishment of localization in cell cellular process vacuolar transport intracellular transport establishment of localization vesicle-mediated transport secretion export from cell membrane docking organelle localization by membrane tethering secretion by cell exocytosis organelle localization vesicle docking exocytic process vesicle docking involved in exocytosis organelle fusion cellular component organization organelle organization cellular component organization or biogenesis vacuole fusion vacuole organization vacuole fusion, non-autophagic regulation of cellular process regulation of cellular component organization membrane fusion organelle membrane fusion cellular component biogenesis vesicle organization regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly SNARE complex assembly membrane organization regulation of biological process protein-containing complex organization biological regulation regulation of cellular component biogenesis regulation of SNARE complex assembly vesicle fusion establishment of protein localization protein transport macromolecule localization intracellular protein localization intracellular protein transport regulation of vacuole organization regulation of organelle organization regulation of vacuole fusion, non-autophagic vesicle localization establishment of organelle localization establishment of vesicle localization vesicle targeting vesicle tethering catabolic process metabolic process primary metabolic process protein catabolic process protein metabolic process macromolecule metabolic process histone catabolic process macromolecule catabolic process Golgi to endosome transport post-Golgi vesicle-mediated transport cytosolic transport Golgi vesicle transport endosome organization endomembrane system organization	membrane-bounded organelle protein-containing complex intracellular anatomical structure CORVET complex endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system vesicle tethering complex intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm membrane-bounded organelle protein-containing complex intracellular anatomical structure CORVET complex endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system vesicle tethering complex intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cytosol vacuolar membrane storage vacuole membrane lytic vacuole vacuole fungal-type vacuole lytic vacuole membrane bounding membrane of organelle organelle membrane fungal-type vacuole membrane membrane protein complex HOPS complex endosome membrane early endosome early endosome membrane cytoplasmic vesicle membrane vesicle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR057307	PEP5/VPS11 N-terminal	Domain
A, B, C	IPR001965	Zinc finger, PHD-type	Domain
A, B, C	IPR057308	PEP5/VPS11, clathrin heavy-chain repeat	Repeat
A, B, C	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A, B, C	IPR000547	Clathrin, heavy chain/VPS, 7-fold repeat	Repeat
A, B, C	IPR024763	Vacuolar protein sorting protein 11, C-terminal	Domain
A, B, C	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B, C	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, B, C	IPR016528	Vacuolar protein sorting-associated protein 11	Family
A, B, C	IPR001841	Zinc finger, RING-type	Domain

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.