5EJJ | pdb_00005ejj

Crystal structure of UfSP from C.elegans

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	KOG2433	e5ejjB2	A: a+b two layers	X: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 (From Topology)	H: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 (From Topology)	T: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2	F: KOG2433	ECOD (1.6)
B	KOG2433_1	e5ejjB1	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: KOG2433_1	ECOD (1.6)
B	Peptidase_C78	e5ejjB3	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: Peptidase_C78	ECOD (1.6)
A	KOG2433	e5ejjA2	A: a+b two layers	X: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 (From Topology)	H: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 (From Topology)	T: N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2	F: KOG2433	ECOD (1.6)
A	KOG2433_1	e5ejjA3	A: a+b three layers	X: Cytidine deaminase-like (From Topology)	H: Cytidine deaminase-like (From Topology)	T: Cytidine deaminase-like	F: KOG2433_1	ECOD (1.6)
A	Peptidase_C78	e5ejjA1	A: a+b complex topology	X: Cysteine proteinases-like	H: Cysteine proteinases (From Topology)	T: Cysteine proteinases	F: Peptidase_C78	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.90.70.130	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)
A	3.90.70.130	Alpha Beta	Alpha-Beta Complex	Cathepsin B	Chain A	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF20908	Ubiquitin-fold modifier 1 specific protease 2, N-terminal (UfSP2_N)	Ubiquitin-fold modifier 1 specific protease 2, N-terminal	This domain is found at the N-terminal end of the eukaryotic protein Ubiquitin-fold modifier 1 (Ufm1) specific protease 2 (UfSP2). UfSP2 is a cysteine protease which recognises and hydrolyses the peptide bond at the C-terminal Gly residue of the prot ...	This domain is found at the N-terminal end of the eukaryotic protein Ubiquitin-fold modifier 1 (Ufm1) specific protease 2 (UfSP2). UfSP2 is a cysteine protease which recognises and hydrolyses the peptide bond at the C-terminal Gly residue of the protein Ufm1, a ubiquitin- like modifier. This protein is organised into two domains: the catalytic C-terminal (Pfam:PF07910) and a N-terminal showing a six- stranded beta-sheet with five helices. This entry represents the most N-terminal beta-strand [1,2].	Domain
A, B	PF22084	Ufm1 specific protease UfSP N-terminal MPN domain (UfSP_MPN_N)	Ufm1 specific protease UfSP N-terminal MPN domain	UfSP is a cysteine protease that activates Ufm1 from its precursor by processing the C-terminus to expose the conserved Gly necessary for substrate conjugation and de-conjugates Ufm1 from the substrate. UfSP from C. elegans consists of three domains: ...	UfSP is a cysteine protease that activates Ufm1 from its precursor by processing the C-terminus to expose the conserved Gly necessary for substrate conjugation and de-conjugates Ufm1 from the substrate. UfSP from C. elegans consists of three domains: MPN domain, N-domain and a catalytic domain. This entry represents the MPN domain that forms an alpha/beta globular structure with a central mixed beta-sheet packed on both sides with helices and a pair of two strands and a helix. This domain modulates both substrate recognition and deufmylation activity [1-2].	Domain
A, B	PF07910	Peptidase family C78 (Peptidase_C78)	Peptidase family C78	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Ufm1-specific protease	cysteine-type peptidase activity ubiquitin-like protein peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity deUFMylase activity catalytic activity	chemotaxis response to stimulus taxis response to chemical response to external stimulus locomotion positive regulation of locomotion regulation of biological process regulation of response to external stimulus biological regulation positive regulation of biological process regulation of chemotaxis positive regulation of chemotaxis positive regulation of response to stimulus chemotaxis response to stimulus taxis response to chemical response to external stimulus locomotion positive regulation of locomotion regulation of biological process regulation of response to external stimulus biological regulation positive regulation of biological process regulation of chemotaxis positive regulation of chemotaxis positive regulation of response to stimulus positive regulation of response to external stimulus regulation of response to stimulus regulation of locomotion localization protein localization to cilium protein localization to organelle macromolecule localization intracellular protein localization protein localization to non-motile cilium proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process response to alcohol response to oxygen-containing compound response to ethanol	cellular anatomical structure intracellular anatomical structure perinuclear region of cytoplasm cytoplasm protein-containing complex membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle endoplasmic reticulum endomembrane system organelle subcompartment membrane cellular anatomical structure intracellular anatomical structure perinuclear region of cytoplasm cytoplasm protein-containing complex membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle endoplasmic reticulum endomembrane system organelle subcompartment membrane endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR049387	UFSP2, second domain	Domain
A, B	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily
A, B	IPR054308	UFSP, N-terminal MPN domain	Domain
A, B	IPR012462	UFSP1/2/DUB, catalytic domain	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.