Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0003343
UniProt IDQ5VVQ6
Primary gene name(s)YOD1
Synonym gene name(s)DUBA8, HIN7, OTUD2
Protein nameUbiquitin thioesterase OTU1
Protein functionHydrolase 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. {ECO:0000269|PubMed:19818707, ECO:0000269|PubMed:23827681}.
Subcellular locationunknown
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q5VVQ6
Gene Ontology
(Biological Process)
Complete annatation
endoplasmic reticulum unfolded protein response [GO:0030968];
ER-associated ubiquitin-dependent protein catabolic process [GO:0030433];
protein K11-linked deubiquitination [GO:0035871];
protein K27-linked deubiquitination [GO:1990167];
protein K29-linked deubiquitination [GO:0035523];
protein K33-linked deubiquitination [GO:1990168];
protein K48-linked deubiquitination [GO:0071108];
protein K63-linked deubiquitination [GO:0070536]
Gene Ontology
(Molecular Function)
Complete annatation
Lys48-specific deubiquitinase activity [GO:1990380];
Lys63-specific deubiquitinase activity [GO:0061578];
metal ion binding [GO:0046872];
thiol-dependent ubiquitin-specific protease activity [GO:0004843];
ubiquitin protein ligase binding [GO:0031625];
ubiquitin-specific protease activity involved in negative regulation of retrograde protein transport, ER to cytosol [GO:1904265]
Gene Ontology
(Cellular Component)
Complete annatation
unknown
Protein-protein interaction120666
Phylogenetic treeQ5VVQ6
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
Brass et al., Science, 2008
      unknown
Smith et al., J. Immunol, 2010
      unknown
Interferon-stimulated
gene status
Lu et al., J. Virol., 2011
      Folds changes 8h: unknown; Folds changes 16h: unknown; Tested: unknown;
Schoggins JW and Rice CM, Curr. Opin. Virol., 2011
      Targeted viruses: unknown
      Viral life cycle: unknown
      Mechanism related to antiviral activity: unknown
Anti-viral restriction factor Liu et al., Retrovirology, 2011
      unknown (Triplicates)

Gene Expression Profile       top

            Up-regulated;            Down-regulated

For brief introduction to each study, please go to the help page.

Gene expression during HIV latency

(1). Mohammadi et al., PLoS Pathog., 2014

Differentially expressed transcripts (Pairwise) during latency and subsequent viral reactivation using several agents - Primary CD4+ T-cell based model


DMSO: Dimethyl suloxyde (negative control) - 0.0033% final
SAHA: Vorinostat (Histone deacetylase inhibitor) - 0.5 μM
CD3: TCR Stimulation by IL-2+ antiCD3/anti-CD28 antibodies
IL7: Interleukin-7 based stimulation
DISU: Disulfiram (alcohol dehydrogenase inhibitor) - 0.5 μM
AZA: 5-azacytidine (AZA; DNA methylation inhibitor) - 1 μM
Experimental Condition Log2 Fold Change P value Adjusted P value
AZA vs. CD30.3541531957661730.28113190204860.397003656673522
AZA vs. DISU1.015463772657890.003577446544889230.155013932073607
AZA vs. IL7-0.02136285378891060.9126854956862450.999311006273513
AZA vs. SAHA0.404043437970260.1008106311686170.401060821914945
DISU vs. CD30.6475397306846350.0826289838185920.160591709912514
DISU vs. IL7-1.044773957126570.00242452713549690.0482946825531614
DISU vs. SAHA-0.6104942910461810.1004188127943960.404980446246813
DMSO vs. AZA-0.0288019661725180.8659238806519891
DMSO vs. CD3-0.393929802305780.2196853885079970.322223773524776
DMSO vs. DISU-1.045985840877660.001817237094111410.0880571157821832
DMSO vs. IL70.01464825521736930.9359639348759810.987037564704311
DMSO vs. SAHA0.4251309845234660.07410458020961860.318185221749049
HIV vs. Mock in Activation0.02710998555263530.965385295279310.999983755607037
HIV vs. Mock in Latency0.0865351984611850.6050282502395290.999834320637052
IL7 vs. CD3-0.3665651316061970.2557342162336210.388311549626973
SAHA vs. CD30.02441979023768070.9450176675645890.962517994741711
SAHA vs. IL70.4210436797527530.08707023575716620.264136996136753
(2). Iglesias-Ussel et al., J. Virol., 2013

Up and Downregulated transcripts during Latency (Latently infected CD4+ T cells vs Uninfected)- Primary CD4+Tcell based model
Log2 Fold Change P Value
unknown unknown

Gene expression during HIV infection and replication

(1). Imbeault et al., PloS Pathog., 2012

Transcriptomic profiling of HIV-1 infected CD4+ T cells - Primary CD4+ T cells
Experiment type Log2 Fold Change P Value Adjusted P Value
Infected vs. Mock unknown unknown unknown
Infected vs. Bystander unknown unknown unknown
(2). Lefebvre et al., J. Virol., 2011

Transcriptome analysis of T-cell line (Sup T1)
Log2 Fold Change unknown
(3). Li et al., J. Immunol., 2013

Lymphatic tissue
Acute Fold Change Acute P Value Asymt Fold Change Asypt P Value AIDS Fold Change AIDS P Value
unknown unknown unknown unknown unknown unknown
(4). Chang et al., MBio., 2011

Transcriptome analysis of T-cell line (Sup T1)

Derived from Sherrill-Mix et al., BMC Retrovirol., 2015 cross validation
Up-regulated (True) TRUE
(5). Sherrill-Mix et al., BMC Retrovirol., 2015

Deep RNA-seq analysis of primary human T cell infected with low passage HIV isolate HIV89.6 - Primary CD4+ T cell based
Test Status Log2 Fold Change P Value
OK 0.726766 0.000305467
(6). Rotger et al., PLoS Pathog., 2010

Genome-wide mRNA expression of CD4+ T cells from HIV-infected patient
(Genes differentially expressed (at adjusted p<0.01) according to the empirical Bayes approach)
Log2 Fold Change P Value
unknown unknown

Proteomic/Transcriptomics studies indicating differentially expressed genes mediated by HIV

(1). Greenwood et al., Elife, 2016

Activated (CD3/CD28) Primary human CD4+ T cells infected with pNL4-3-dE-EGFP. The table shows the complete (unfiltered) TMT (tandem mass tag)-based proteomic time course dataset
6 h 24 h 48 h 72 h RTi
0.986 0.906 1.07 1.037 0.888
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
unknown unknown unknown unknown unknown unknown unknown
(3). Hyrcza et al., J. Virolo., 2007

Primary human CD4+ and CD8+ T Cells
Affymetrix Prob ID Fold Change In CD8? Category
unknown unknown unknown unknown

Protein Overview       top

Drug-protein Interaction       (annotations from DrugBank)      top

not found

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
4BOQ X-ray 1.4Å A=132-314.
4BOS X-ray 2.3Å A/B=147-314.
4BOZ X-ray 3.0Å A/D=132-314.

HIV-1 Interaction       (annotations from NCBI HIV-1 Interaction Database)      top

not found

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04141 Protein processing in endoplasmic reticulum - Homo sapiens (human)
Menu