2OGB | pdb_00002ogb

Crystal structure of the C-terminal domain of mouse Nrdp1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
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)
B	d2ogbb2	Alpha and beta proteins (a+b)	NRDP1 C-terminal domain-like	NRDP1 C-terminal domain-like	USP8 interacting domain	E3 ubiquitin-protein ligase NRDP1	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2ogbb3	Artifacts	Tags	Tags	Tags	N-terminal Tags	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2ogba_	Alpha and beta proteins (a+b)	NRDP1 C-terminal domain-like	NRDP1 C-terminal domain-like	USP8 interacting domain	E3 ubiquitin-protein ligase NRDP1	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	USP8_interact	e2ogbB1	A: a+b complex topology	X: USP8 interacting domain (From Topology)	H: USP8 interacting domain (From Topology)	T: USP8 interacting domain	F: USP8_interact	ECOD (1.6)
A	USP8_interact	e2ogbA1	A: a+b complex topology	X: USP8 interacting domain (From Topology)	H: USP8 interacting domain (From Topology)	T: USP8 interacting domain	F: USP8_interact	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF08941	USP8 interacting (USP8_interact)	USP8 interacting	This domain interacts with the UBP deubiquitinating enzyme USP8.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	RING finger protein 41	small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding signaling receptor binding cytokine receptor binding erythropoietin receptor binding interleukin-3 receptor binding growth factor receptor binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding signaling receptor binding cytokine receptor binding erythropoietin receptor binding interleukin-3 receptor binding growth factor receptor 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 tyrosine kinase binding kinase binding receptor tyrosine kinase binding protein kinase binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding identical protein binding	catabolic process regulation of cellular process macroautophagy autophagy negative regulation of biological process regulation of autophagy mitophagy negative regulation of cellular process regulation of autophagy of mitochondrion process utilizing autophagic mechanism negative regulation of catabolic process regulation of biological process negative regulation of metabolic process negative regulation of autophagy of mitochondrion catabolic process regulation of cellular process macroautophagy autophagy negative regulation of biological process regulation of autophagy mitophagy negative regulation of cellular process regulation of autophagy of mitochondrion process utilizing autophagic mechanism negative regulation of catabolic process regulation of biological process negative regulation of metabolic process negative regulation of autophagy of mitochondrion biological regulation regulation of mitophagy regulation of catabolic process negative regulation of mitophagy negative regulation of macroautophagy regulation of macroautophagy negative regulation of autophagy cellular process metabolic process regulation of metabolic process autophagy of mitochondrion proteolysis involved in protein catabolic process proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process proteolysis protein metabolic process macromolecule metabolic process cellular response to stimulus regulation of signaling response to stimulus signaling regulation of signal transduction regulation of MAPK cascade intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette MAPK cascade regulation of cell communication signal transduction protein autoubiquitination protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal cell surface receptor signaling pathway cell death extrinsic apoptotic signaling pathway apoptotic signaling pathway apoptotic process programmed cell death positive regulation of protein metabolic process positive regulation of biological process regulation of primary metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of protein metabolic process regulation of macromolecule metabolic process positive regulation of protein catabolic process positive regulation of catabolic process regulation of protein catabolic process reactive oxygen species metabolic process positive regulation of reactive oxygen species metabolic process regulation of reactive oxygen species metabolic process developmental process multicellular organismal process regulation of multicellular organismal development regulation of developmental process cellular developmental process regulation of myeloid cell differentiation hemopoiesis cell development regulation of cell differentiation regulation of cell development multicellular organism development myeloid cell differentiation cell differentiation immune system process anatomical structure development regulation of hemopoiesis regulation of immune system process regulation of multicellular organismal process regulation of leukocyte differentiation regulation of leukocyte activation regulation of cell activation mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation regulation of lymphocyte differentiation cell activation leukocyte differentiation regulation of lymphocyte activation protein polyubiquitination negative regulation of locomotion regulation of cell motility regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction	membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle endoplasmic reticulum cytoplasm endoplasmic reticulum tubular network perinuclear region of cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR013010	Zinc finger, SIAH-type	Domain
A, B	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
A, B	IPR015036	E3 ubiquitin-protein ligase NRDP1	Domain
A, B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B	IPR037255	NRDP1, C-terminal	Homologous Superfamily
A, B	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.