Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0004508
UniProt IDP17844
Primary gene name(s)DDX5
Synonym gene name(s)G17P1, HELR, HLR1
Protein nameProbable ATP-dependent RNA helicase DDX5
Protein functionInvolved in the alternative regulation of pre-mRNA splicing; its RNA helicase activity is necessary for increasing tau exon 10 inclusion and occurs in a RBM4-dependent manner. Binds to the tau pre-mRNA in the stem-loop region downstream of exon 10. The rate of ATP hydrolysis is highly stimulated by single-stranded RNA. Involved in transcriptional regulation; the function is independent of the RNA helicase activity. Transcriptional coactivator for estrogen receptor ESR1 and androgen receptor AR. Increases ESR1 AF-1 domain-mediated transactivation and ESR1 AF-1 and AF-2 domains transcriptional synergistic activity. Synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and involved in skeletal muscle differentiation. Transcriptional coactivator for p53/TP53 and involved in p53/TP53 transcriptional response to DNA damage and p53/TP53-dependent apoptosis. Transcriptional coactivator for RUNX2 and involved in regulation of osteoblast differentiation. Acts as transcriptional repressor in a promoter-specific manner; the function probably involves association with histone deacetylases, such as HDAC1. As component of a large PER complex is involved in the inhibition of 3' transcriptional termination of circadian target genes such as PER1 and NR1D1 and the control of the circadian rhythms. {ECO:0000269|PubMed:10409727, ECO:0000269|PubMed:11250900, ECO:0000269|PubMed:12527917, ECO:0000269|PubMed:15298701, ECO:0000269|PubMed:15660129, ECO:0000269|PubMed:17011493, ECO:0000269|PubMed:17960593, ECO:0000269|PubMed:18829551, ECO:0000269|PubMed:19718048, ECO:0000269|PubMed:21343338}.
Subcellular locationNucleus, nucleolus {ECO:0000269|PubMed:10837141, ECO:0000269|PubMed:1996094}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P17844
Gene Ontology
(Biological Process)
Complete annatation
cell growth [GO:0016049];
intrinsic apoptotic signaling pathway by p53 class mediator [GO:0072332];
mRNA splicing, via spliceosome [GO:0000398];
mRNA transcription [GO:0009299];
negative regulation of transcription from RNA polymerase II promoter [GO:0000122];
positive regulation of DNA damage response, signal transduction by p53 class mediator [GO:0043517];
positive regulation of intracellular estrogen receptor signaling pathway [GO:0033148];
positive regulation of transcription from RNA polymerase II promoter [GO:0045944];
regulation of alternative mRNA splicing, via spliceosome [GO:0000381];
regulation of androgen receptor signaling pathway [GO:0060765];
regulation of osteoblast differentiation [GO:0045667];
regulation of skeletal muscle cell differentiation [GO:2001014];
regulation of viral genome replication [GO:0045069];
rhythmic process [GO:0048511];
RNA secondary structure unwinding [GO:0010501]
Gene Ontology
(Molecular Function)
Complete annatation
androgen receptor binding [GO:0050681];
ATP binding [GO:0005524];
ATP-dependent RNA helicase activity [GO:0004004];
estrogen receptor binding [GO:0030331];
poly(A RNA binding [GO:0044822];
pre-mRNA binding [GO:0036002];
RNA helicase activity [GO:0003724];
transcription coactivator activity [GO:0003713]
Gene Ontology
(Cellular Component)
Complete annatation
catalytic step 2 spliceosome [GO:0071013];
extracellular exosome [GO:0070062];
intracellular ribonucleoprotein complex [GO:0030529];
membrane [GO:0016020];
nucleolus [GO:0005730];
nucleoplasm [GO:0005654];
nucleus [GO:0005634]
Protein-protein interaction108021
Phylogenetic treeP17844
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: numerous RNA and DNA viruses
      Viral life cycle: translation; replication
      Mechanism related to antiviral activity: viral sensing; activation of IRFs
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. CD30.0001105483561311280.9997306615573930.999796996283792
AZA vs. DISU-0.03378538582251970.8937115236470840.993789282048992
AZA vs. IL70.04864399603734230.799399110806190.999311006273513
AZA vs. SAHA-0.8101831662957530.0009653811387350110.0202113267851272
DISU vs. CD3-0.04749825006682030.8954933930021320.931649348203061
DISU vs. IL70.07338724406447580.7704434333070630.94598742099013
DISU vs. SAHA-0.7744293835276550.008850564111189780.0952083167164463
DMSO vs. AZA0.0517402268714220.756060841706421
DMSO vs. CD30.03979605598957270.9009138505340310.932737760861465
DMSO vs. DISU0.0837266091002290.7311486517008860.966405304137568
DMSO vs. IL70.004066989709801810.9818681589907510.997820041579181
DMSO vs. SAHA-0.8681038789415180.0002607020423310850.00696638382973719
HIV vs. Mock in Activation-0.0351332029539650.9549045297896140.999983755607037
HIV vs. Mock in Latency-0.08616823809507280.5996526075910140.999834320637052
IL7 vs. CD30.05583802871654460.8619183726263490.911953926056223
SAHA vs. CD3-0.8340989936895210.02020258661424350.0464417921837855
SAHA vs. IL7-0.8620782216636070.0004494196579213350.00633135693785626
(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
1.8 0.005986407 1.2 0.116253914 1.7 0.132055749
(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 0.481759 0.000580925
(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
1.021 0.927 0.711 0.725 0.923
(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
3FE2 X-ray 2.6Å A/B=68-307.
4A4D X-ray 2.7Å A=52-304.

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

HIV Partner Interaction Type PubMed
Rev interacts with 22174317
23608157
23741449
Rev enhanced by 23608157
23741449
Envelope surface glycoprotein gp120 complexes with 23125841
retropepsin cleaves 22944692
Gag-Pol complexes with 23125841
matrix upregulates 26469385
Vpr upregulates 23874603
Pr55(Gag) complexes with 23125841
capsid enhanced by 23741449
2570182125701821
HIV-1 virus replication enhanced by expression of human gene 26312911
25701821
23741449
25701821
Pr55(Gag) interacts with 26362536
Nef complexes with 23125841

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03040 Spliceosome - Homo sapiens (human)
hsa05202 Transcriptional misregulation in cancer - Homo sapiens (human)
hsa05205 Proteoglycans in cancer - Homo sapiens (human)
Menu