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Tbio
YOD1
Ubiquitin thioesterase OTU1

Protein Summary
Description
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 (PubMed:27753622). Protein ubiquitination controls many intracellular processes ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000315927
  • ENSP00000326813
  • ENSG00000180667
  • ENST00000367084
  • ENSP00000356051

Symbol
  • DUBA8
  • HIN7
  • OTUD2
  • DUBA8
  • OTUD2
  • PRO0907
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
microRNA
0.93
cellular component
0.73
transcription factor binding site profile
0.68
histone modification site profile
0.63
tissue sample
0.6


Related Tools
Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 20.87   (req: < 5)
Gene RIFs: 9   (req: <= 3)
Antibodies: 144   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 20.87   (req: >= 5)
Gene RIFs: 9   (req: > 3)
Antibodies: 144   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 17
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
GWAS Traits (3)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mathematical ability
1
1
1
52
systolic blood pressure change measurement
1
1
0
64.4
43.1
diastolic blood pressure
1
1
1
38
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mathematical ability
1
52
systolic blood pressure change measurement
0
64.4
43.1
diastolic blood pressure
1
38
Orthologs (14)
1 – 5 of 14
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Macaque
YOD1 deubiquitinase
693769
Mouse
MGI:2442596
226418
Rat
RGD:1359726
363982
Dog
YOD1 deubiquitinase
VGNC:48496
490268
Horse
YOD1 deubiquitinase [Source:HGNC Symbol;Acc:HGNC:25035]
Species
Name
OMA
EggNOG
Inparanoid
Macaque
YOD1 deubiquitinase
Mouse
Rat
Dog
YOD1 deubiquitinase
Horse
YOD1 deubiquitinase [Source:HGNC Symbol;Acc:HGNC:25035]
Protein Structure (3 Structures, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q5VVQ6-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 3 of 3
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (5)
Deubiquitination (R-HSA-5688426)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 4 of 4
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Deubiquitination
Reactome
Metabolism of proteins
Reactome
Ovarian tumor domain proteases
Reactome
Post-translational protein modification
Name
Explore in Pharos
Explore in Source
Deubiquitination
Metabolism of proteins
Ovarian tumor domain proteases
Post-translational protein modification
Gene Ontology Terms (19)
Items per page:
10
1 – 7 of 7
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
ParkinsonsUK-UCL
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Physical Interaction (IPI)
ParkinsonsUK-UCL
Inferred from Mutant Phenotype (IMP)
ParkinsonsUK-UCL
Traceable Author Statement (TAS)
ParkinsonsUK-UCL
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Inferred from Electronic Annotation (IEA)
InterPro
Protein-Protein Interactions (113)
1 – 10 of 113
CCDC51
Tdark
Novelty: 1.19203634
p_int: 0.999978058
p_ni: 0.00002194
p_wrong: 2e-9
Score: 0.217
Data Source: BioPlex,STRINGDB
FCF1
Tdark
Novelty: 0.04202976
p_int: 0.99786351
p_ni: 0.002136279
p_wrong: 2.1e-7
Score: 0.167
Data Source: BioPlex,STRINGDB
VCP
Tchem
Family: Enzyme
Novelty: 0.00103317
Score: 0.995
Data Source: Reactome,STRINGDB
UBC
Tbio
Novelty: 0.00204643
Score: 0.98
Data Source: STRINGDB
UFD1
Tbio
Novelty: 0.01230296
Score: 0.957
Data Source: STRINGDB
NPLOC4
Tbio
Novelty: 0.01690434
Score: 0.955
Data Source: STRINGDB
UBA52
Tbio
Novelty: 0.01637744
Score: 0.946
Data Source: STRINGDB
UBB
Tbio
Novelty: 0.00661254
Score: 0.944
Data Source: STRINGDB
PLAA
Tchem
Family: Enzyme
Novelty: 0.01164687
Score: 0.894
Data Source: STRINGDB
UBXN6
Tbio
Novelty: 0.08383376
Score: 0.894
Data Source: STRINGDB
Publication Statistics
PubMed Score  20.87

PubMed score by year
PubTator Score  9.18

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer