Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000781
UniProt IDQ86XP3
Primary gene name(s)DDX42
Synonym gene name(s)unknown
Protein nameATP-dependent RNA helicase DDX42
Protein functionATP-dependent RNA helicase. Binds to partially double-stranded RNAs, dsRNAs in order to unwind RNA secondary structures. Unwinding is promoted in the presence of single-strand binding proteins. Mediates also RNA duplex formation thereby displacing the single-strand RNA binding protein. ATP and ADP modulate its activity: ATP binding and hydrolysis by DDX42 triggers RNA strand separation, whereas the ADP-bound form of the protein triggers annealing of complementary RNA strands. Involved in the survival of cells by interacting with TP53BP2 and thereby counteracting the apoptosis-stimulating activity of TP53BP2. Relocalizes TP53BP2 to the cytoplasm. {ECO:0000269|PubMed:16397294, ECO:0000269|PubMed:19377511}.
Subcellular locationCytoplasm. Nucleus speckle. Nucleus, Cajal body. Note=Isoform 2 is present in Cajal bodies, CBs and nuclear speckles.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q86XP3
Gene Ontology
(Biological Process)
Complete annatation
protein localization [GO:0008104];
RNA secondary structure unwinding [GO:0010501]
Gene Ontology
(Molecular Function)
Complete annatation
ATP binding [GO:0005524];
ATP-dependent RNA helicase activity [GO:0004004];
poly(A RNA binding [GO:0044822]
Gene Ontology
(Cellular Component)
Complete annatation
Cajal body [GO:0015030];
cytoplasm [GO:0005737];
membrane [GO:0016020];
nuclear speck [GO:0016607];
nucleoplasm [GO:0005654];
nucleus [GO:0005634]
Protein-protein interaction116454
Phylogenetic treeQ86XP3
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. CD30.1438694386663640.6599958541042340.753823697564339
AZA vs. DISU-0.2524263479611760.3181822231667470.870080690516335
AZA vs. IL70.06125961877305650.7494802592870860.999311006273513
AZA vs. SAHA0.1807304773008560.459410115797280.798262780265202
DISU vs. CD3-0.4092757373808670.2587715728061230.386419500953596
DISU vs. IL70.3048265447774530.2260766057029890.610017632090888
DISU vs. SAHA0.4344854482338250.1362488024138320.473571425548629
DMSO vs. AZA0.04415911742871380.7915584590081111
DMSO vs. CD3-0.1119752188376310.7258946199319170.800380769177657
DMSO vs. DISU0.294582562408180.2273284483492490.739762409117508
DMSO vs. IL70.02449450103681380.8914000247125250.97624072378739
DMSO vs. SAHA0.1299340581764470.5821356374921740.856523107746222
HIV vs. Mock in Activation0.02735069745926450.964930619105090.999983755607037
HIV vs. Mock in Latency-0.0240053242058120.8840000819585610.999834320637052
IL7 vs. CD3-0.07486002763187780.8154523641007630.879923185233051
SAHA vs. CD30.01183540601464120.9732612905691750.981598691532423
SAHA vs. IL70.1155224290989440.6354571483363590.819969273585197
(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) FALSE
(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 -0.00553067 0.979538
(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
1.004 0.953 0.887 0.903 0.932
(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
hsa03040 Spliceosome - Homo sapiens (human)
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