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Protein

Ubiquitin thioesterase OTU1

Gene

Yod1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Hydrolase that can remove conjugated ubiquitin from proteins and participates in endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by triming the ubiquitin chain on the associated substrate to facilitate their threading through the VCP/p97 pore. Ubiquitin moieties on substrates may present a steric impediment to the threading process when the substrate is transferred to the VCP pore and threaded through VCP's axial channel. Mediates deubiquitination of 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains. Also able to hydrolyze 'Lys-11'-linked ubiquitin chains. Cleaves both polyubiquitin and di-ubiquitin. May play a role in macroautophagy, regulating for instance the clearance of damaged lysosomes. May recruit PLAA, UBXN6 and VCP to damaged lysosome membranes decorated with K48-linked ubiquitin chains and remove these chains allowing autophagosome formation.By similarity

Catalytic activityi

Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei152By similarity1
Active sitei155NucleophileBy similarity1
Binding sitei261Substrate; via carbonyl oxygenBy similarity1
Active sitei262By similarity1
Active sitei337By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri313 – 337C2H2-typeAdd BLAST25

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase, Protease, Thiol protease
Biological processUbl conjugation pathway, Unfolded protein response
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-RNO-5689896. Ovarian tumor domain proteases.

Protein family/group databases

MEROPSiC85.007.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin thioesterase OTU1 (EC:3.4.19.12By similarity)
Gene namesi
Name:Yod1
Synonyms:Hshin7
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 13

Organism-specific databases

RGDi1359726. Yod1.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002823581 – 343Ubiquitin thioesterase OTU1Add BLAST343

Proteomic databases

PaxDbiQ32Q05.
PRIDEiQ32Q05.

PTM databases

iPTMnetiQ32Q05.
PhosphoSitePlusiQ32Q05.

Expressioni

Gene expression databases

BgeeiENSRNOG00000025704.

Interactioni

Subunit structurei

Interacts with VCP; the interaction is direct. Interacts with FAF2/UBXD8. Interacts with DERL1; however interaction is dependent on the UBAX-like region, suggesting that it may be indirect. Interacts with PLAA, UBXN6 and VCP; may form a complex involved in macroautophagy.By similarity

GO - Molecular functioni

Protein-protein interaction databases

BioGridi264526. 1 interactor.
STRINGi10116.ENSRNOP00000031836.

Structurei

3D structure databases

ProteinModelPortaliQ32Q05.
SMRiQ32Q05.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini144 – 269OTUPROSITE-ProRule annotationAdd BLAST126

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni45 – 123UBX-likeAdd BLAST79
Regioni149 – 155Cys-loopBy similarity7
Regioni208 – 218Variable-loopBy similarityAdd BLAST11
Regioni258 – 262His-loopBy similarity5
Regioni286 – 291S2 siteBy similarity6

Domaini

The UBAX-like region mediates the interaction with VCP.By similarity
The C2H2-type zinc finger mediates specificity for 'Lys-27'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitin chains but not for 'Lys-11'-linked ubiquitin chains. Selectivity for 'Lys-11'-linked ubiquitin chains is provided by recognition of the sequence surrounding 'Lys-11' in ubiquitin. The S2 site region provides specificity for longer 'Lys-11'-linked ubiquitin chains.By similarity

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri313 – 337C2H2-typeAdd BLAST25

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3288. Eukaryota.
COG5539. LUCA.
GeneTreeiENSGT00390000009989.
HOGENOMiHOG000193461.
HOVERGENiHBG097006.
InParanoidiQ32Q05.
KOiK13719.
OMAiLFDGIHY.
OrthoDBiEOG091G0CA6.
PhylomeDBiQ32Q05.
TreeFamiTF323700.

Family and domain databases

InterProiView protein in InterPro
IPR003323. OTU_dom.
IPR029071. Ubiquitin-like_domsf.
IPR013087. Znf_C2H2_type.
PfamiView protein in Pfam
PF02338. OTU. 1 hit.
SUPFAMiSSF54236. SSF54236. 1 hit.
PROSITEiView protein in PROSITE
PS50802. OTU. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 1 hit.

Sequencei

Sequence statusi: Complete.

Q32Q05-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFGGAKGGHF GVPPAGCSGA VSQAAAGTKA GPAGGRPADT MWRLRCKAKG
60 70 80 90 100
GTHVLQGLSN RTRLRELQGQ IAAITGIAPG SQRILVGYPP ECLDLSDRDI
110 120 130 140 150
TLGDLPIQSG DMLIVEEDQT RPKASPAFSK HGAPSYVRET LPVLTRTAVP
160 170 180 190 200
ADNSCLFTSV YYVVEGGVLN PACAPEMRRL IAQIVASDPD LYSEAILGKT
210 220 230 240 250
NEEYCDWIRR DDTWGGAIEI SILSKFYQCE ICVVDTQTVR IDRFGEDAGY
260 270 280 290 300
TKRVLLIYDG IHYDPLQRNF PDPDTPPLTI FSSNDDIVLV QALELADEAR
310 320 330 340
RKRQFTDVNR FTLRCMLCQK GLTGQAEARD HARETGHTNF GEV
Length:343
Mass (Da):37,402
Last modified:December 6, 2005 - v1
Checksum:iAD23FFBF8A4AC502
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC107904 mRNA. Translation: AAI07905.1.
BN000319 mRNA. Translation: CAE48374.1.
RefSeqiNP_001008889.1. NM_001008889.1.
UniGeneiRn.212904.

Genome annotation databases

EnsembliENSRNOT00000030476; ENSRNOP00000031836; ENSRNOG00000025704.
GeneIDi363982.
KEGGirno:363982.
UCSCiRGD:1359726. rat.

Similar proteinsi

Entry informationi

Entry nameiOTU1_RAT
AccessioniPrimary (citable) accession number: Q32Q05
Secondary accession number(s): Q6IE74
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: December 6, 2005
Last modified: November 22, 2017
This is version 85 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome