2YW8 | pdb_00002yw8

Crystal structure of human RUN and FYVE domain-containing protein

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2yw8a_	Small proteins	FYVE/PHD zinc finger	FYVE/PHD zinc finger	automated matches	automated matches	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	Redoxin	e2yw8A1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Redoxin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.40.10	Alpha Beta	2-Layer Sandwich	Herpes Virus-1	Zinc/RING finger domain, C3HC4 (zinc finger)	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	RUN and FYVE domain-containing protein 1	protein binding binding SH2 domain binding protein domain specific binding protein-macromolecule adaptor activity molecular adaptor activity SH3 domain binding lipid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding protein binding binding SH2 domain binding protein domain specific binding protein-macromolecule adaptor activity molecular adaptor activity SH3 domain binding lipid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding identical protein binding	early endosome to Golgi transport cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell cellular process Golgi vesicle transport early endosome to Golgi transport cellular localization transport intracellular transport establishment of localization vesicle-mediated transport endosomal transport localization intercellular transport cytosolic transport retrograde transport, endosome to Golgi establishment of localization in cell cellular process Golgi vesicle transport regulation of localization import into cell regulation of biological process regulation of cellular process regulation of cellular component organization regulation of transport biological regulation regulation of vesicle-mediated transport cellular component organization cellular component organization or biogenesis endocytosis regulation of endocytosis establishment of protein localization protein transport macromolecule localization intracellular protein localization membrane organization endosomal vesicle fusion membrane fusion organelle membrane fusion vesicle organization organelle fusion organelle organization vesicle fusion cellular response to stimulus small GTPase-mediated signal transduction response to stimulus signaling intracellular signal transduction cell communication intracellular signaling cassette signal transduction	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck ribonucleoprotein granule intracellular organelle nuclear body cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle supramolecular complex nuclear ribonucleoprotein granule nuclear lumen cytoplasm cytosol endosome intracellular vesicle endomembrane system cytoplasmic vesicle vesicle endosome membrane early endosome membrane early endosome membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR004012	RUN domain	Domain
A	IPR047330	RUN and FYVE domain-containing protein 1, RUN domain	Domain
A	IPR017455	Zinc finger, FYVE-related	Domain
A	IPR000306	FYVE zinc finger	Domain
A	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A	IPR037213	RUN domain superfamily	Homologous Superfamily
A	IPR047335	RUN and FYVE domain-containing protein 1-3	Family
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR047331	RUN and FYVE domain-containing protein 1, FYVE domain	Domain
A	IPR001841	Zinc finger, RING-type	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q96T51	astrocytic tumor Malignant neoplasm of breast psoriasis exocrine pancreatic carcinoma malignant pancreatic neoplasm glioblastoma ovarian cancer

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Monotopic/peripheral	All beta monotopic/peripheral	FYVE/PHD zinc finger	FYVE, a phosphatidylinositol-3-phosphate binding 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.