1JRU | pdb_00001jru

NMR STRUCTURE OF THE UBX DOMAIN FROM P47 (ENERGY MINIMISED AVERAGE)

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	d1jrua_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Ubiquitin-like	UBX domain	p47	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Ubiquitin-like	8033613	3000157	SCOP2B (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	S4	e1jruA1	A: beta barrels	X: ETN0001 domain-like	H: ETN0001 domain-like	T: Mss4-like	F: S4	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00789	UBX domain (UBX)	UBX domain	This domain is present in ubiquitin-regulatory proteins and is a general Cdc48-interacting module [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	p47 protein	binding lipid binding protein binding ubiquitin binding ubiquitin-like protein binding ATPase binding enzyme binding	membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle localization establishment of mitotic spindle localization establishment of spindle localization membrane organization cellular component organization membrane fusion cellular process cellular component organization or biogenesis establishment of organelle localization cellular localization microtubule cytoskeleton organization spindle localization establishment or maintenance of cell polarity mitotic cell cycle localization establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell cell cycle microtubule cytoskeleton organization involved in mitosis cell cycle process establishment of localization establishment of cell polarity organelle organization mitotic cell cycle process establishment of mitotic spindle orientation microtubule-based process cytoskeleton organization membrane biogenesis nuclear membrane reassembly membrane assembly nuclear membrane organization cellular component biogenesis nucleus organization cellular component assembly nuclear envelope organization endomembrane system organization autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy autophagy autophagosome organization metabolic process process utilizing autophagic mechanism regulation of cellular process centrosome separation positive regulation of biological process mitotic centrosome separation centrosome cycle positive regulation of cell cycle process regulation of cell cycle positive regulation of cellular process regulation of biological process mitotic nuclear division microtubule organizing center organization regulation of cell cycle process organelle fission biological regulation positive regulation of cell cycle regulation of mitotic centrosome separation nuclear division positive regulation of mitotic centrosome separation primary metabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process protein metabolic process macromolecule metabolic process Golgi organization protein localization to microtubule cytoskeleton regulation of localization regulation of protein localization regulation of protein localization to centrosome negative regulation of biological process protein localization to microtubule organizing center macromolecule localization protein localization to cytoskeleton protein localization to organelle intracellular protein localization negative regulation of protein localization to centrosome protein localization to centrosome negative regulation of protein localization	membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm membraneless organelle intracellular membraneless organelle membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm membraneless organelle intracellular membraneless organelle chromosome spindle pole centrosome spindle centrosome microtubule organizing center cytoskeleton spindle pole microtubule cytoskeleton protein-containing complex VCP-NSFL1C complex cytosol nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR036241	NSFL1 cofactor p47, SEP domain superfamily	Homologous Superfamily
A	IPR009060	UBA-like superfamily	Homologous Superfamily
A	IPR001012	UBX domain	Domain
A	IPR012989	SEP domain	Domain

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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.