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Protein

Ubiquitin thioesterase OTU1

Gene

yod1

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 4 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 (By similarity).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 sitei110By similarity1
Active sitei113NucleophileBy similarity1
Binding sitei219Substrate; via carbonyl oxygenBy similarity1
Active sitei220By similarity1
Active sitei295By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri271 – 295C2H2-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-DRE-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
ORF Names:zgc:112182
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 11

Organism-specific databases

ZFINiZDB-GENE-050417-217. yod1.

Subcellular locationi

GO - Cellular componenti

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002823601 – 301Ubiquitin thioesterase OTU1Add BLAST301

Proteomic databases

PaxDbiQ567B1.
PRIDEiQ567B1.

Expressioni

Gene expression databases

BgeeiENSDARG00000008542.
ExpressionAtlasiQ567B1. baseline.

Interactioni

Protein-protein interaction databases

STRINGi7955.ENSDARP00000003565.

Structurei

3D structure databases

ProteinModelPortaliQ567B1.
SMRiQ567B1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini102 – 227OTUPROSITE-ProRule annotationAdd BLAST126

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni5 – 83UBX-likeAdd BLAST79
Regioni107 – 113Cys-loopBy similarity7
Regioni166 – 176Variable-loopBy similarityAdd BLAST11
Regioni216 – 220His-loopBy similarity5
Regioni244 – 249S2 siteBy similarity6

Domaini

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).By similarity

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri271 – 295C2H2-typeAdd BLAST25

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3288. Eukaryota.
COG5539. LUCA.
GeneTreeiENSGT00390000009989.
HOGENOMiHOG000193461.
HOVERGENiHBG097006.
InParanoidiQ567B1.
KOiK13719.
OMAiLFDGIHY.
OrthoDBiEOG091G0CA6.
PhylomeDBiQ567B1.
TreeFamiTF323700.

Family and domain databases

InterProiView protein in InterPro
IPR003323. OTU_dom.
IPR029071. Ubiquitin-rel_dom.
IPR000626. Ubiquitin_dom.
PfamiView protein in Pfam
PF02338. OTU. 1 hit.
PF14560. Ubiquitin_2. 1 hit.
SUPFAMiSSF54236. SSF54236. 1 hit.
PROSITEiView protein in PROSITE
PS50802. OTU. 1 hit.
PS50053. UBIQUITIN_2. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 1 hit.

Sequencei

Sequence statusi: Complete.

Q567B1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLRLRCKAKN GTHLMQGLTH QSCVQELKDK IEELTGIPCD VQKIMVGYPP
60 70 80 90 100
SSLDLRNGEA HLKDYPIKSG DTLIVEEEKN KPKPPVQPTV TKGPSFEVTP
110 120 130 140 150
VVERRVVPAD NSCLFTSVNY VMEGGVYDPA CASEMRGLIA QIVASDPTAY
160 170 180 190 200
SEAVLGKTNE EYCTWIRRDD TWGGAIEVSI LSKFYQCEIC VVDTQTVRVD
210 220 230 240 250
RFGEDAGYTK RVLLIYDGIH YDPLQKVLPG SDVPAQTVFS TVDDVILAQA
260 270 280 290 300
LELADEARRK RQFTDVNRFA LRCMVCQTGL VGQKEAREHA KETGHTNFGE

V
Length:301
Mass (Da):33,486
Last modified:May 10, 2005 - v1
Checksum:i70D85A2694B56198
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC093247 mRNA. Translation: AAH93247.1.
RefSeqiNP_001017716.1. NM_001017716.2.
UniGeneiDr.104832.

Genome annotation databases

EnsembliENSDART00000023388; ENSDARP00000003565; ENSDARG00000008542.
GeneIDi550411.
KEGGidre:550411.

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.

Entry informationi

Entry nameiOTU1_DANRE
AccessioniPrimary (citable) accession number: Q567B1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: May 10, 2005
Last modified: June 7, 2017
This is version 78 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