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Protein

Ubiquitin thioesterase otubain-like

Gene

otub-1

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Hydrolase that can remove conjugated ubiquitin from proteins and plays an important regulatory role at the level of protein turnover by preventing degradation. Specifically cleaves 'Lys-48'-linked polyubiquitin.1 Publication

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 sitei85By similarity1
Active sitei88NucleophileBy similarity1
Binding sitei176Substrate; via carbonyl oxygenBy similarity1
Active sitei245By similarity1
Active sitei267By similarity1

GO - Molecular functioni

GO - Biological processi

  • protein K48-linked deubiquitination Source: WormBase
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Ubl conjugation pathway

Enzyme and pathway databases

ReactomeiR-CEL-5689880. Ub-specific processing proteases.
R-CEL-5689896. Ovarian tumor domain proteases.

Protein family/group databases

MEROPSiC65.A01.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin thioesterase otubain-like (EC:3.4.19.12By similarity)
Alternative name(s):
Deubiquitinating enzyme otubain-like
Ubiquitin-specific-processing protease otubain-like
Gene namesi
Name:otub-1
ORF Names:C25D7.8
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome V

Organism-specific databases

WormBaseiC25D7.8; CE08394; WBGene00007718; otub-1.

Subcellular locationi

GO - Cellular componenti

  • nucleus Source: GO_Central
  • plasma membrane Source: WormBase
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002210131 – 284Ubiquitin thioesterase otubain-likeAdd BLAST284

Proteomic databases

EPDiQ9XVR6.
PaxDbiQ9XVR6.
PeptideAtlasiQ9XVR6.
PRIDEiQ9XVR6.

Expressioni

Gene expression databases

BgeeiWBGene00007718.

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

BioGridi533138. 2 interactors.
DIPiDIP-26135N.
IntActiQ9XVR6. 2 interactors.
MINTiMINT-1069399.
STRINGi6239.C25D7.8.2.

Structurei

Secondary structure

1284
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi30 – 37Combined sources8
Helixi38 – 40Combined sources3
Helixi50 – 55Combined sources6
Turni59 – 61Combined sources3
Helixi63 – 73Combined sources11
Beta strandi76 – 80Combined sources5
Helixi88 – 103Combined sources16
Helixi105 – 124Combined sources20
Helixi129 – 147Combined sources19
Beta strandi149 – 151Combined sources3
Helixi153 – 161Combined sources9
Helixi163 – 183Combined sources21
Helixi185 – 188Combined sources4
Helixi189 – 191Combined sources3
Helixi198 – 205Combined sources8
Helixi215 – 224Combined sources10
Beta strandi229 – 235Combined sources7
Helixi236 – 238Combined sources3
Beta strandi242 – 249Combined sources8
Beta strandi258 – 264Combined sources7
Beta strandi267 – 273Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4DHIX-ray1.80B1-284[»]
4DHJX-ray2.35A/E/I/L1-284[»]
4DHZX-ray3.11A42-284[»]
4LDTX-ray1.90A42-284[»]
ProteinModelPortaliQ9XVR6.
SMRiQ9XVR6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini77 – 274OTUPROSITE-ProRule annotationAdd BLAST198

Sequence similaritiesi

Belongs to the peptidase C65 family.Curated
Contains 1 OTU domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG3991. Eukaryota.
ENOG410ZMN7. LUCA.
GeneTreeiENSGT00390000006979.
HOGENOMiHOG000019496.
InParanoidiQ9XVR6.
KOiK09602.
OMAiEDFHETF.
OrthoDBiEOG091G0GDO.
PhylomeDBiQ9XVR6.

Family and domain databases

InterProiIPR003323. OTU_dom.
IPR016615. Otubain.
IPR019400. Peptidase_C65_otubain.
[Graphical view]
PfamiPF10275. Peptidase_C65. 1 hit.
[Graphical view]
PIRSFiPIRSF013503. Ubiquitin_thioesterase_Otubain. 1 hit.
PROSITEiPS50802. OTU. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9XVR6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MANEPQKSDD NGQAAEAVVT DDEIVLQDQQ LKTIEDEQKS VPLVATLAPF
60 70 80 90 100
SILCAEYDNE TSAAFLSKAT ELSEVYGEIR YIRGDGNCFY RAILVGLIEI
110 120 130 140 150
MLKDRARLEK FIASSRDWTR TLVELGFPDW TCTDFCDFFI EFLEKIHSGV
160 170 180 190 200
HTEEAVYTIL NDDGSANYIL MFFRLITSAF LKQNSEEYAP FIDEGMTVAQ
210 220 230 240 250
YCEQEIEPMW KDADHLAINS LIKAAGTRVR IEYMDRTAAP NGGWHYDIPS
260 270 280
DDQQIAPEIT LLYRPGHYDV IYKKDSTEAS EIEN
Length:284
Mass (Da):32,293
Last modified:November 1, 1999 - v1
Checksum:i262500E41F8FA23C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z81039 Genomic DNA. Translation: CAB02772.1.
PIRiT19448.
RefSeqiNP_506709.1. NM_074308.4.
UniGeneiCel.4680.

Genome annotation databases

EnsemblMetazoaiC25D7.8; C25D7.8; WBGene00007718.
GeneIDi3565820.
KEGGicel:CELE_C25D7.8.
UCSCiC25D7.8. c. elegans.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z81039 Genomic DNA. Translation: CAB02772.1.
PIRiT19448.
RefSeqiNP_506709.1. NM_074308.4.
UniGeneiCel.4680.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4DHIX-ray1.80B1-284[»]
4DHJX-ray2.35A/E/I/L1-284[»]
4DHZX-ray3.11A42-284[»]
4LDTX-ray1.90A42-284[»]
ProteinModelPortaliQ9XVR6.
SMRiQ9XVR6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi533138. 2 interactors.
DIPiDIP-26135N.
IntActiQ9XVR6. 2 interactors.
MINTiMINT-1069399.
STRINGi6239.C25D7.8.2.

Protein family/group databases

MEROPSiC65.A01.

Proteomic databases

EPDiQ9XVR6.
PaxDbiQ9XVR6.
PeptideAtlasiQ9XVR6.
PRIDEiQ9XVR6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiC25D7.8; C25D7.8; WBGene00007718.
GeneIDi3565820.
KEGGicel:CELE_C25D7.8.
UCSCiC25D7.8. c. elegans.

Organism-specific databases

CTDi3565820.
WormBaseiC25D7.8; CE08394; WBGene00007718; otub-1.

Phylogenomic databases

eggNOGiKOG3991. Eukaryota.
ENOG410ZMN7. LUCA.
GeneTreeiENSGT00390000006979.
HOGENOMiHOG000019496.
InParanoidiQ9XVR6.
KOiK09602.
OMAiEDFHETF.
OrthoDBiEOG091G0GDO.
PhylomeDBiQ9XVR6.

Enzyme and pathway databases

ReactomeiR-CEL-5689880. Ub-specific processing proteases.
R-CEL-5689896. Ovarian tumor domain proteases.

Miscellaneous databases

PROiQ9XVR6.

Gene expression databases

BgeeiWBGene00007718.

Family and domain databases

InterProiIPR003323. OTU_dom.
IPR016615. Otubain.
IPR019400. Peptidase_C65_otubain.
[Graphical view]
PfamiPF10275. Peptidase_C65. 1 hit.
[Graphical view]
PIRSFiPIRSF013503. Ubiquitin_thioesterase_Otubain. 1 hit.
PROSITEiPS50802. OTU. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiOTUBL_CAEEL
AccessioniPrimary (citable) accession number: Q9XVR6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 1, 2004
Last sequence update: November 1, 1999
Last modified: November 30, 2016
This is version 109 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Peptidase families
    Classification of peptidase families and list of entries
  4. SIMILARITY comments
    Index of protein domains and families

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.