1DVP | pdb_00001dvp

CRYSTAL STRUCTURE OF THE VHS AND FYVE TANDEM DOMAINS OF HRS, A PROTEIN INVOLVED IN MEMBRANE TRAFFICKING AND SIGNAL TRANSDUCTION

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1dvpa1	All alpha proteins	alpha-alpha superhelix	ENTH/VHS domain	VHS domain	Hrs	fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)
A	d1dvpa2	Small proteins	FYVE/PHD zinc finger	FYVE/PHD zinc finger	FYVE, a phosphatidylinositol-3-phosphate binding domain	Hrs	fruit fly (Drosophila melanogaster ) [TaxId: 7227 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	VHS domain	8026277	4001359	SCOP2 (2022-06-29)
A	SCOP2 Family	FYVE, a phosphatidylinositol-3-phosphate binding domain	8026956	4003768	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ENTH/VHS domain-like	8038656	3000164	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	FYVE/PHD zinc finger	8039335	3001459	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	VHS	e1dvpA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: VHS	ECOD (1.6)
A	FYVE	e1dvpA2	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: FYVE/PHD zinc finger	F: FYVE	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.25.40.90	Mainly Alpha	Alpha Horseshoe	Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat		CATH (4.3.0)
A	3.30.40.10	Alpha Beta	2-Layer Sandwich	Herpes Virus-1	Zinc/RING finger domain, C3HC4 (zinc finger)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01363	FYVE zinc finger (FYVE)	FYVE zinc finger	The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn++ ions [1]. The FYVE finger has eight potential zinc coordinating cysteine positions. Man ...	The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn++ ions [1]. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. We have included members which do not conserve these histidine residues but are clearly related.	Domain
A	PF00790	VHS domain (VHS)	VHS domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	HEPATOCYTE GROWTH FACTOR-REGULATED TYROSINE KINASE SUBSTRATE	binding phospholipid binding lipid binding phosphatidylinositol binding protein binding ubiquitin binding ubiquitin-like protein binding cation binding ion binding metal ion binding small molecule binding	multicellular organismal process regulation of cell motility regulation of cellular process regulation of epithelial cell migration, open tracheal system epithelial cell migration, open tracheal system multicellular organism development tissue migration ameboidal-type cell migration anatomical structure development regulation of cell migration respiratory system development epithelial cell migration cell migration regulation of multicellular organismal process multicellular organismal process regulation of cell motility regulation of cellular process regulation of epithelial cell migration, open tracheal system epithelial cell migration, open tracheal system multicellular organism development tissue migration ameboidal-type cell migration anatomical structure development regulation of cell migration respiratory system development epithelial cell migration cell migration regulation of multicellular organismal process open tracheal system development cell motility regulation of epithelial cell migration locomotion system development developmental process regulation of biological process biological regulation epithelium migration regulation of locomotion cellular process localization import into cell receptor internalization transport receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport cellular developmental process cell development developmental maturation nervous system development generation of neurons neurogenesis neuron differentiation neuron remodeling anatomical structure maturation cell differentiation neuron development neuron maturation cell maturation cellular localization intracellular transport endosomal transport multivesicular body sorting pathway establishment of localization in cell endosome transport via multivesicular body sorting pathway cellular response to stimulus response to stimulus negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of smoothened signaling pathway negative regulation of cellular process signal transduction regulation of smoothened signaling pathway regulation of signaling cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of signal transduction smoothened signaling pathway regulation of response to stimulus regulation of cell communication positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process positive regulation of response to stimulus positive regulation of cellular process regulation of Toll signaling pathway positive regulation of Toll signaling pathway Toll signaling pathway positive regulation of signaling negative regulation of torso signaling pathway cell surface receptor protein tyrosine kinase signaling pathway torso signaling pathway regulation of torso signaling pathway enzyme-linked receptor protein signaling pathway protein localization regulation of localization establishment of protein localization nitrogen compound transport positive regulation of establishment of protein localization cellular macromolecule localization positive regulation of Wnt protein secretion establishment of protein localization to extracellular region protein secretion regulation of protein secretion regulation of secretion positive regulation of protein localization regulation of protein localization positive regulation of secretion by cell protein localization to extracellular region positive regulation of protein transport secretion by cell regulation of secretion by cell positive regulation of secretion signal release regulation of Wnt protein secretion secretion regulation of transport regulation of establishment of protein localization cell-cell signaling export from cell regulation of protein transport Wnt protein secretion positive regulation of protein secretion positive regulation of transport protein transport regulation of cellular localization macromolecule localization positive regulation of locomotion sexual reproduction reproductive process cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation epithelial cell differentiation gamete generation positive regulation of cell migration follicle cell of egg chamber development positive regulation of epithelial cell migration positive regulation of cell motility epithelium development positive regulation of border follicle cell migration regulation of border follicle cell migration oogenesis multicellular organismal reproductive process follicle cell of egg chamber migration tissue development epithelial cell development border follicle cell migration germ cell development cell cycle regulation of cell cycle exosomal secretion vesicle localization establishment of organelle localization establishment of vesicle localization extracellular exosome biogenesis cellular component biogenesis exocytosis extracellular vesicle biogenesis organelle localization cellular component organization or biogenesis vesicle-mediated transport between endosomal compartments early endosome to late endosome transport localization within membrane endocytic recycling vesicle-mediated transport to the plasma membrane	cell periphery cell cortex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle cell periphery cell cortex cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle vesicle perinuclear region of cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR024641	Hepatocyte growth factor-regulated tyrosine kinase substrate, helical domain	Domain
A	IPR002014	VHS domain	Domain
A	IPR008942	ENTH/VHS	Homologous Superfamily
A	IPR017455	Zinc finger, FYVE-related	Domain
A	IPR000306	FYVE zinc finger	Domain
A	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A	IPR017073	Hepatocyte growth factor-regulated tyrosine kinase substrate/VPS27	Family
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR003903	Ubiquitin interacting motif	Conserved Site

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.