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B2RYG6

- OTUB1_RAT

UniProt

B2RYG6 - OTUB1_RAT

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Protein

Ubiquitin thioesterase OTUB1

Gene

Otub1

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

Functioni

Hydrolase that can specifically remove compared to 'Lys-48'-linked conjugated ubiquitin from proteins and plays an important regulatory role at the level of protein turnover by preventing degradation. Regulator of T-cell anergy, a phenomenon that occurs when T-cells are rendered unresponsive to antigen rechallenge and no longer respond to their cognate antigen. Acts via its interaction with RNF128/GRAIL. Surprisingly, it regulates RNF128-mediated ubiquitination, but does not deubiquitinate polyubiquitinated RNF128. Deubiquitinates estrogen receptor alpha (ESR1). Mediates deubiquitination of 'Lys-48'-linked polyubiquitin chains, but not 'Lys-63'-linked polyubiquitin chains. Not able to cleave di-ubiquitin. Also capable of removing NEDD8 from NEDD8 conjugates, but with a much lower preference compared to 'Lys-48'-linked ubiquitin (By similarity).By similarity
Plays a key non-catalytic role in DNA repair regulation by inhibiting activity of RNF168, an E3 ubiquitin-protein ligase that promotes accumulation of 'Lys-63'-linked histone H2A and H2AX at DNA damage sites. Inhibits RNF168 independently of ubiquitin thioesterase activity by binding and inhibiting UBE2N/UBC13, the E2 partner of RNF168, thereby limiting spreading of 'Lys-63'-linked histone H2A and H2AX marks. Inhibition occurs by binding to free ubiquitin: free ubiquitin acts as an allosteric regulator that increases affinity for UBE2N/UBC13 and disrupts interaction with UBE2V1. The OTUB1-UBE2N/UBC13-free ubiquitin complex adopts a configuration that mimics a cleaved 'Lys48'-linked di-ubiquitin chain (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).

Enzyme regulationi

By free ubiquitin: binding of free ubiquitin triggers conformational changes in the OTU domain and formation of a ubiquitin-binding helix in the N-terminus, promoting binding of the conjugated donor ubiquitin in UBE2N/UBC13 to OTUB1.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei23 – 231Required for proximal ubiquitin-bindingBy similarity
Active sitei88 – 881By similarity
Active sitei91 – 911NucleophileBy similarity
Binding sitei221 – 2211Free ubiquitinBy similarity
Binding sitei235 – 2351Free ubiquitinBy similarity
Binding sitei237 – 2371Free ubiquitinBy similarity
Binding sitei261 – 2611Free ubiquitinBy similarity
Active sitei265 – 2651By similarity
Binding sitei266 – 2661Free ubiquitinBy similarity

GO - Molecular functioni

  1. NEDD8-specific protease activity Source: UniProtKB
  2. omega peptidase activity Source: InterPro
  3. ubiquitin binding Source: UniProtKB
  4. ubiquitin-specific protease activity Source: UniProtKB

GO - Biological processi

  1. cellular response to DNA damage stimulus Source: UniProtKB
  2. cellular response to interleukin-1 Source: RGD
  3. DNA repair Source: UniProtKB-KW
  4. immune system process Source: UniProtKB-KW
  5. negative regulation of double-strand break repair Source: UniProtKB
  6. negative regulation of histone H2A K63-linked ubiquitination Source: UniProtKB
  7. protein K48-linked deubiquitination Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protease, Thiol protease

Keywords - Biological processi

Adaptive immunity, DNA damage, DNA repair, Immunity, Ubl conjugation pathway

Protein family/group databases

MEROPSiC65.001.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin thioesterase OTUB1By similarity (EC:3.4.19.12)
Alternative name(s):
Deubiquitinating enzyme OTUB1By similarity
OTU domain-containing ubiquitin aldehyde-binding protein 1By similarity
Otubain-1By similarity
Ubiquitin-specific-processing protease OTUB1By similarity
Gene namesi
Name:Otub1Imported
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 1

Organism-specific databases

RGDi1311329. Otub1.

Subcellular locationi

Cytoplasm 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: RGD
  2. extracellular vesicular exosome Source: Ensembl
  3. nucleus Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 271270Ubiquitin thioesterase OTUB1PRO_0000349125Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Modified residuei16 – 161PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiB2RYG6.
PRIDEiB2RYG6.

2D gel databases

World-2DPAGE0004:B2RYG6.

PTM databases

PhosphoSiteiB2RYG6.

Expressioni

Gene expression databases

GenevestigatoriB2RYG6.

Interactioni

Subunit structurei

Interacts with RNF128. Forms a ternary complex with RNF128 and USP8. Interacts with FUS, ESR1 and GNB2L1/RACK1. Interacts with UBE2N/UBC13 (By similarity).By similarity

Protein-protein interaction databases

BioGridi254414. 2 interactions.
STRINGi10116.ENSRNOP00000028752.

Structurei

3D structure databases

ProteinModelPortaliB2RYG6.
SMRiB2RYG6. Positions 25-271.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini80 – 271192OTUPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni130 – 1389Ubiquitin-conjugating enzyme E2 bindingBy similarity
Regioni169 – 1779Ubiquitin-conjugating enzyme E2 bindingBy similarity
Regioni189 – 1957Free ubiquitin bindingBy similarity
Regioni206 – 2138Ubiquitin-conjugating enzyme E2 bindingBy similarity
Regioni214 – 2218Free ubiquitin bindingBy similarity
Regioni245 – 2517Free ubiquitin bindingBy similarity

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiNOG267426.
GeneTreeiENSGT00390000006979.
HOGENOMiHOG000019496.
HOVERGENiHBG053383.
InParanoidiB2RYG6.
KOiK09602.
OMAiVEPMYKE.
OrthoDBiEOG71K64D.
PhylomeDBiB2RYG6.
TreeFamiTF314145.

Family and domain databases

InterProiIPR003323. OTU.
IPR019400. Peptidase_C65_otubain.
IPR016615. Ubiquitin_thioesterase_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.

Sequence processingi: The displayed sequence is further processed into a mature form.

B2RYG6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAAEEPQQQK QEPLGSDSEG VNCLAYDEAI MAQQDRIQQE IAVQNPLVSE
60 70 80 90 100
RLELSVLYKE YAEDDNIYQQ KIKDLHKKYS YIRKTRPDGN CFYRAFGFSH
110 120 130 140 150
LEALLDDSKE LQRFKAVSAK SKEDLVSQGF TEFTIEDFHN TFMDLIEQVE
160 170 180 190 200
KQTSVADLLA SFNDQSTSDY LVVYLRLLTS GYLQRESKFF EHFIEGGRTV
210 220 230 240 250
KEFCQQEVEP MCKESDHIHI IALAQALSVS IQVEYMDRGE GGTTNPHVFP
260 270
EGSEPKVYLL YRPGHYDILY K
Length:271
Mass (Da):31,270
Last modified:July 1, 2008 - v1
Checksum:i32F78EE1DC5FD679
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CH473953 Genomic DNA. Translation: EDM12666.1.
BC166771 mRNA. Translation: AAI66771.1.
RefSeqiNP_001099802.1. NM_001106332.1.
UniGeneiRn.9218.

Genome annotation databases

EnsembliENSRNOT00000028752; ENSRNOP00000028752; ENSRNOG00000021175.
GeneIDi293705.
KEGGirno:293705.
UCSCiRGD:1311329. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CH473953 Genomic DNA. Translation: EDM12666.1 .
BC166771 mRNA. Translation: AAI66771.1 .
RefSeqi NP_001099802.1. NM_001106332.1.
UniGenei Rn.9218.

3D structure databases

ProteinModelPortali B2RYG6.
SMRi B2RYG6. Positions 25-271.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 254414. 2 interactions.
STRINGi 10116.ENSRNOP00000028752.

Protein family/group databases

MEROPSi C65.001.

PTM databases

PhosphoSitei B2RYG6.

2D gel databases

World-2DPAGE 0004:B2RYG6.

Proteomic databases

PaxDbi B2RYG6.
PRIDEi B2RYG6.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSRNOT00000028752 ; ENSRNOP00000028752 ; ENSRNOG00000021175 .
GeneIDi 293705.
KEGGi rno:293705.
UCSCi RGD:1311329. rat.

Organism-specific databases

CTDi 55611.
RGDi 1311329. Otub1.

Phylogenomic databases

eggNOGi NOG267426.
GeneTreei ENSGT00390000006979.
HOGENOMi HOG000019496.
HOVERGENi HBG053383.
InParanoidi B2RYG6.
KOi K09602.
OMAi VEPMYKE.
OrthoDBi EOG71K64D.
PhylomeDBi B2RYG6.
TreeFami TF314145.

Miscellaneous databases

NextBioi 636821.
PROi B2RYG6.

Gene expression databases

Genevestigatori B2RYG6.

Family and domain databases

InterProi IPR003323. OTU.
IPR019400. Peptidase_C65_otubain.
IPR016615. Ubiquitin_thioesterase_Otubain.
[Graphical view ]
Pfami PF10275. Peptidase_C65. 1 hit.
[Graphical view ]
PIRSFi PIRSF013503. Ubiquitin_thioesterase_Otubain. 1 hit.
PROSITEi PS50802. OTU. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Brown Norway.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: ProstateImported.
  3. "Proteome profile of the mature rat olfactory bulb."
    Maurya D.K., Sundaram C.S., Bhargava P.
    Proteomics 9:2593-2599(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiOTUB1_RAT
AccessioniPrimary (citable) accession number: B2RYG6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: July 1, 2008
Last modified: October 29, 2014
This is version 54 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Peptidase families
    Classification of peptidase families and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3