Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000782
UniProt IDQ9H0S4
Primary gene name(s)DDX47
Synonym gene name(s)unknown
Protein nameProbable ATP-dependent RNA helicase DDX47
Protein functionInvolved in apoptosis. May have a role in rRNA processing and mRNA splicing. Associates with pre-rRNA precursors. {ECO:0000269|PubMed:15977068, ECO:0000269|PubMed:16963496}.
Subcellular locationNucleus, nucleolus {ECO:0000269|PubMed:12429849, ECO:0000269|PubMed:16963496}. Note=Localizes in the nucleolar-organizing region during ribosome biogenesis.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9H0S4
Gene Ontology
(Biological Process)
Complete annatation
extrinsic apoptotic signaling pathway via death domain receptors [GO:0008625];
mRNA processing [GO:0006397];
RNA secondary structure unwinding [GO:0010501];
RNA splicing [GO:0008380];
rRNA processing [GO:0006364]
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
membrane [GO:0016020];
nucleolus [GO:0005730];
nucleoplasm [GO:0005654]
Protein-protein interaction119375
Phylogenetic treeQ9H0S4
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. CD31.193894440017440.0003252363368656530.0013611224739972
AZA vs. DISU-0.1824004676733560.4731897174132880.927550299127166
AZA vs. IL70.2315578774090580.2326098108379360.990920320206469
AZA vs. SAHA-0.2823603891839790.2506931503429210.620415128594514
DISU vs. CD3-1.389266116075050.0001683188316143890.000894653761549824
DISU vs. IL70.404990429766410.1098716497727560.433817475202802
DISU vs. SAHA-0.09843998778159450.7365534461135920.923790633505373
DMSO vs. AZA0.0420149454059690.8044803857585251
DMSO vs. CD3-1.163215522200310.0003316487151144850.0012963902161909
DMSO vs. DISU0.2227264962566680.3638240995688410.848603804442413
DMSO vs. IL70.1967261726725880.2782204316589280.77084598552809
DMSO vs. SAHA-0.3308170188440810.1636971237502360.489694194529537
HIV vs. Mock in Activation-0.07139707832923930.9086001032380640.999983755607037
HIV vs. Mock in Latency-0.03327229301683660.8421053448437910.999834320637052
IL7 vs. CD3-0.9547538840410820.003241116202053470.0116262124020828
SAHA vs. CD3-1.50064313825223.28282802589674e-050.0001798335817894
SAHA vs. IL7-0.5172323959833040.03509653203488970.144508364898642
(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 -0.0612806 0.750718
(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
0.971 0.94 0.694 0.514 0.733
(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
3BER X-ray 1.4Å A=5-230.

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

HIV Partner Interaction Type PubMed
Rev interacts with 22174317

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found