5M5Q | pdb_00005m5q

COPS5(2-257) IN COMPLEX WITH A AZAINDOLE (COMPOUND 4)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	JAB1/MPN domain-like	8053263	3001105	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	JAB	e5m5qA1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: JAB	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF01398	JAB1/Mov34/MPN/PAD-1 ubiquitin protease (JAB)	JAB1/Mov34/MPN/PAD-1 ubiquitin protease	Proteins with this domain are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This domain is known as the MPN domain [3] and PAD-1-like domain [4], JABP1 domain [5] or J ...	Proteins with this domain are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This domain is known as the MPN domain [3] and PAD-1-like domain [4], JABP1 domain [5] or JAMM domain [7]. These are metalloenzymes that function as the ubiquitin isopeptidase/ deubiquitinase in the ubiquitin-based signalling and protein turnover pathways in eukaryotes [7]. Versions of the domain in prokaryotic cognates of the ubiquitin-modification pathway are shown to have a similar role, and the archaeal protein from Haloferax volcanii is found to cleave ubiquitin-like small archaeal modifier proteins (SAMP1/2) from protein conjugates [8,9].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	COP9 signalosome complex subunit 5	translation factor activity translation initiation factor activity peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity ubiquitin-like protein peptidase activity deNEDDylase activity transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity translation factor activity translation initiation factor activity peptidase activity catalytic activity, acting on a protein metallopeptidase activity hydrolase activity catalytic activity ubiquitin-like protein peptidase activity deNEDDylase activity transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity metal-dependent deubiquitinase activity deubiquitinase activity protein binding binding enzyme binding macrophage migration inhibitory factor binding cytokine binding cation binding ion binding metal ion binding small molecule binding	cellular response to stimulus regulation of cellular process response to stimulus signaling regulation of cellular response to stress endoplasmic reticulum unfolded protein response regulation of response to endoplasmic reticulum stress regulation of signal transduction intracellular signal transduction cell communication regulation of endoplasmic reticulum unfolded protein response cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress cellular response to stimulus regulation of cellular process response to stimulus signaling regulation of cellular response to stress endoplasmic reticulum unfolded protein response regulation of response to endoplasmic reticulum stress regulation of signal transduction intracellular signal transduction cell communication regulation of endoplasmic reticulum unfolded protein response cellular response to stress regulation of intracellular signal transduction response to stress regulation of response to stress signal transduction regulation of IRE1-mediated unfolded protein response response to endoplasmic reticulum stress regulation of biological process regulation of signaling cellular response to topologically incorrect protein biological regulation cellular response to unfolded protein response to unfolded protein regulation of response to stimulus response to topologically incorrect protein IRE1-mediated unfolded protein response regulation of cell communication cellular process regulation of JNK cascade regulation of MAPK cascade JNK cascade intracellular signaling cassette MAPK cascade negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death positive regulation of DNA-binding transcription factor activity RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process positive regulation of molecular function nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of molecular function regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process macromolecule modification protein metabolic process post-translational protein modification protein modification process protein neddylation protein modification by small protein conjugation protein modification by small protein conjugation or removal regulation of protein modification process regulation of post-translational protein modification regulation of protein metabolic process regulation of protein neddylation regulation of protein modification by small protein conjugation or removal cell cycle regulation of cell cycle protein deneddylation protein modification by small protein removal exosomal secretion vesicle localization establishment of organelle localization cellular localization transport secretion establishment of vesicle localization export from cell establishment of localization extracellular exosome biogenesis vesicle-mediated transport cellular component biogenesis localization secretion by cell exocytosis extracellular vesicle biogenesis organelle localization establishment of localization in cell cellular component organization or biogenesis proteolysis positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process translation	eukaryotic translation initiation factor 3 complex protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus nuclear protein-containing complex COP9 signalosome intracellular membrane-bounded organelle membrane-enclosed lumen eukaryotic translation initiation factor 3 complex protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle organelle nucleus nuclear protein-containing complex COP9 signalosome intracellular membrane-bounded organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome perinuclear region of cytoplasm transport vesicle synapse intracellular vesicle endomembrane system presynapse cytoplasmic vesicle synaptic vesicle cell junction secretory vesicle vesicle exocytic vesicle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR040961	Cop9 signalosome subunit 5 C-terminal domain	Domain
A	IPR050242	JAMM/MPN+ metalloenzymes, peptidase M67A	Family
A	IPR037518	MPN domain	Domain
A	IPR000555	JAB1/MPN/MOV34 metalloenzyme domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q92905	Stevens-Johnson syndrome brain aneurysm Liver carcinoma medulloblastoma plasma cell myeloma lymphoplasmacytic lymphoma psoriasis toxic epidermal necrolysis hepatocellular carcinoma Machado-Joseph disease ovarian cancer

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.