Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0007708
UniProt IDP51668
Primary gene name(s)UBE2D1
Synonym gene name(s)SFT, UBC5A, UBCH5, UBCH5A
Protein nameUbiquitin-conjugating enzyme E2 D1
Protein functionAccepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro catalyzes 'Lys-48'-linked polyubiquitination. Mediates the selective degradation of short-lived and abnormal proteins. Functions in the E6/E6-AP-induced ubiquitination of p53/TP53. Mediates ubiquitination of PEX5 and auto-ubiquitination of STUB1, TRAF6 and TRIM63/MURF1. Ubiquitinates STUB1-associated HSP90AB1 in vitro. Lacks inherent specificity for any particular lysine residue of ubiquitin. Essential for viral activation of IRF3. Mediates polyubiquitination of CYP3A4. {ECO:0000269|PubMed:18042044, ECO:0000269|PubMed:18359941, ECO:0000269|PubMed:19103148, ECO:0000269|PubMed:19854139, ECO:0000269|PubMed:20061386}.
Subcellular locationCytoplasm {ECO:0000269|PubMed:18845142}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P51668
Gene Ontology
(Biological Process)
Complete annatation
anaphase-promoting complex-dependent catabolic process [GO:0031145];
BMP signaling pathway [GO:0030509];
Fc-epsilon receptor signaling pathway [GO:0038095];
negative regulation of transcription from RNA polymerase II promoter [GO:0000122];
negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle [GO:0051436];
positive regulation of protein ubiquitination [GO:0031398];
positive regulation of ubiquitin-protein ligase activity involved in regulation of mitotic cell cycle transition [GO:0051437];
proteasome-mediated ubiquitin-dependent protein catabolic process [GO:0043161];
protein K48-linked ubiquitination [GO:0070936];
protein polyubiquitination [GO:0000209];
protein ubiquitination involved in ubiquitin-dependent protein catabolic process [GO:0042787];
regulation of transcription from RNA polymerase II promoter in response to hypoxia [GO:0061418];
regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle [GO:0051439];
stimulatory C-type lectin receptor signaling pathway [GO:0002223];
T cell receptor signaling pathway [GO:0050852];
TRIF-dependent toll-like receptor signaling pathway [GO:0035666];
ubiquitin-dependent protein catabolic process [GO:0006511]
Gene Ontology
(Molecular Function)
Complete annatation
ATP binding [GO:0005524];
ubiquitin conjugating enzyme activity [GO:0061631];
ubiquitin-protein transferase activity [GO:0004842]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
cytosol [GO:0005829];
nucleoplasm [GO:0005654];
protein complex [GO:0043234];
ubiquitin ligase complex [GO:0000151]
Protein-protein interaction113169
Phylogenetic treeP51668
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
Brass et al., Science, 2008
Smith et al., J. Immunol, 2010
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. CD31.176309031984510.0004075719748251050.0016598013522194
AZA vs. DISU-0.06322599263416430.8048621538241160.983438610789082
AZA vs. IL70.1414872385215630.4704574213628130.999311006273513
AZA vs. SAHA-0.09773063268677510.6927276289145240.91259966261512
DISU vs. CD3-1.251896166601140.000697677322087920.00302380332178071
DISU vs. IL70.1966439981503970.4397343352152390.790106686933222
DISU vs. SAHA-0.03420904988217550.9075254355541580.978425480408773
DMSO vs. AZA-0.1564515437371750.3646956705800861
DMSO vs. CD3-1.343822274265783.78478876763566e-050.000189051202866151
DMSO vs. DISU-0.09470708692831790.7015664087001790.958896020162235
DMSO vs. IL70.304942915391740.09723947344148210.571272432630687
DMSO vs. SAHA0.05088431180580330.8314036066897980.954164160556043
HIV vs. Mock in Activation-0.2848825886212610.6477863013606570.999983755607037
HIV vs. Mock in Latency-0.04649755742925620.7844851994806260.999834320637052
IL7 vs. CD3-1.025074779233830.001636220188233390.0064731619152866
SAHA vs. CD3-1.299697870329620.0003030733443688540.00126588561519918
SAHA vs. IL7-0.243956667496430.3227772637657950.572619097799882
(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) unknown
(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 0.425522 0.00199466
(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
1.087 1.096 1.093 1.158 1.216
(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
2C4P X-ray 2.3Å A/B=1-147.
2YHO X-ray 2.1Å B/D/F/H=1-147.
3OJ4 X-ray 3.4Å A/D=1-147.
3PTF X-ray 2.7Å A/B=1-147.
4AP4 X-ray 2.2Å B/E=1-147.
4QPL X-ray 1.9Å B/D=1-147.
5FER X-ray 2.3Å B/E=1-147.

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

HIV Partner Interaction Type PubMed
Tat ubiquitinated by 12883554

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04120 Ubiquitin mediated proteolysis - Homo sapiens (human)
hsa04141 Protein processing in endoplasmic reticulum - Homo sapiens (human)