Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000599
UniProt IDQ14839
Primary gene name(s)CHD4
Synonym gene name(s)unknown
Protein nameChromodomain-helicase-DNA-binding protein 4
Protein functionComponent of the histone deacetylase NuRD complex which participates in the remodeling of chromatin by deacetylating histones. {ECO:0000269|PubMed:17626165, ECO:0000269|PubMed:9804427}.
Subcellular locationNucleus {ECO:0000269|PubMed:17626165, ECO:0000269|PubMed:27616479}. Cytoplasm, cytoskeleton, microtubule organizing center, centrosome {ECO:0000269|PubMed:17626165}. Note=Associates with centrosomes in interphase. {ECO:0000250|UniProtKB:Q6PDQ2}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q14839
Gene Ontology
(Biological Process)
Complete annatation
ATP-dependent chromatin remodeling [GO:0043044];
negative regulation of transcription from RNA polymerase II promoter [GO:0000122];
regulation of signal transduction by p53 class mediator [GO:1901796];
regulation of transcription from RNA polymerase II promoter [GO:0006357];
spindle assembly [GO:0051225];
terminal button organization [GO:0072553];
transcription, DNA-templated [GO:0006351]
Gene Ontology
(Molecular Function)
Complete annatation
ATP binding [GO:0005524];
ATP-dependent DNA helicase activity [GO:0004003];
DNA binding [GO:0003677];
histone deacetylase activity [GO:0004407];
RNA polymerase II repressing transcription factor binding [GO:0001103];
zinc ion binding [GO:0008270]
Gene Ontology
(Cellular Component)
Complete annatation
centrosome [GO:0005813];
cytoplasm [GO:0005737];
membrane [GO:0016020];
nuclear chromatin [GO:0000790];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
NuRD complex [GO:0016581];
protein complex [GO:0043234];
protein-DNA complex [GO:0032993]
Protein-protein interaction107533
Phylogenetic treeQ14839
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. CD30.9459379062217220.004264729005788890.0127081841785785
AZA vs. DISU0.4253948164484540.09309545229127460.627603241430534
AZA vs. IL70.01375692542339880.9428204513987010.999311006273513
AZA vs. SAHA0.2944690668956460.2289850276863270.599154923312376
DISU vs. CD3-0.5337259855106290.1413196393603330.244564724965406
DISU vs. IL7-0.4210874198932210.09612141909995260.410789619370972
DISU vs. SAHA-0.128823014736550.6579374129702020.895167893010194
DMSO vs. AZA0.04837032194505250.7719598259476971
DMSO vs. CD3-0.9078756801129440.004986651157176110.0136738077325916
DMSO vs. DISU-0.3786701560088780.1212885225256590.602729645757499
DMSO vs. IL7-0.02752564291505340.8779940565430620.973265104409616
DMSO vs. SAHA0.2392960047697540.312114940477170.66345335231755
HIV vs. Mock in Activation0.3604032143199370.5626491513368320.999983755607037
HIV vs. Mock in Latency0.03805806387785590.8169342053610430.999834320637052
IL7 vs. CD3-0.9256974054707940.004533423603650940.0154353498933433
SAHA vs. CD3-0.6761143253946260.05622366737314690.109116634554195
SAHA vs. IL70.2775148047734230.2584499968865710.503603316063621
(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 0.645069 0.0184378
(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
0.998 1.011 0.97 0.952 1.007
(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
1MM2 NMR - A=446-501.
1MM3 NMR - A=446-476# A=490-501.
2EE1 NMR - A=618-674.
2L5U NMR - A=365-420.
2L75 NMR - A=446-501.
2N5N NMR - A=145-225.
4O9I X-ray 2.6Å X=499-677.

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
hsa05203 Viral carcinogenesis - Homo sapiens (human)