Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0012385
UniProt IDQ9Y2X8
Primary gene name(s)UBE2D4
Synonym gene name(s)UBCH5D
Protein nameUbiquitin-conjugating enzyme E2 D4
Protein functionAccepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro able to promote polyubiquitination using all 7 ubiquitin Lys residues, but may prefer 'Lys-11' and 'Lys-48'-linked polyubiquitination. {ECO:0000269|PubMed:20061386}.
Subcellular locationunknown
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9Y2X8
Gene Ontology
(Biological Process)
Complete annatation
protein K11-linked ubiquitination [GO:0070979];
protein K27-linked ubiquitination [GO:0044314];
protein K29-linked ubiquitination [GO:0035519];
protein K48-linked ubiquitination [GO:0070936];
protein K63-linked ubiquitination [GO:0070534];
protein K6-linked ubiquitination [GO:0085020];
protein ubiquitination [GO:0016567]
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
Protein-protein interaction119641
Phylogenetic treeQ9Y2X8
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. CD30.3925443838865180.2395382371523250.350686771283131
AZA vs. DISU0.1155773743519830.65913950023950.960561603296512
AZA vs. IL70.155834708789830.4471956798750290.999311006273513
AZA vs. SAHA-0.8350410360379730.001540129787215070.0277370566457348
DISU vs. CD3-0.2894436146531140.4303339650508280.561972987020374
DISU vs. IL70.03136099723917160.9039578698892430.982189124739072
DISU vs. SAHA-0.9507203289281710.002021609389495360.0341155799809392
DMSO vs. AZA-0.1043449758537070.5702010126021281
DMSO vs. CD3-0.5099451388065660.1178889034442310.194950200920674
DMSO vs. DISU-0.2220185246726480.3801759999336440.857159233842012
DMSO vs. IL70.2677910733963910.1645645511706140.671887971984543
DMSO vs. SAHA-0.7365245852860370.003795361626788840.0456139514173322
HIV vs. Mock in Activation0.02809854554803560.9643725402611520.999983755607037
HIV vs. Mock in Latency-0.1835855692072860.3180257252133390.999834320637052
IL7 vs. CD3-0.2294741379834120.4825023414683610.614253191972348
SAHA vs. CD3-1.254632935313290.0007030597454552590.00264421260273657
SAHA vs. IL7-0.9964210681842210.0001315516623870970.00243612992484411
(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 -0.0668852 0.819969
(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
unknown unknown unknown unknown unknown
(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

not found

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