Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0003143
UniProt IDQ9Y4A5
Primary gene name(s)TRRAP
Synonym gene name(s)PAF400
Protein nameTransformation/transcription domain-associated protein
Protein functionAdapter protein, which is found in various multiprotein chromatin complexes with histone acetyltransferase activity, HAT, which gives a specific tag for epigenetic transcription activation. Component of the NuA4 histone acetyltransferase complex which is responsible for acetylation of nucleosomal histones H4 and H2A. Plays a central role in MYC transcription activation, and also participates in cell transformation by MYC. Required for p53/TP53-, E2F1- and E2F4-mediated transcription activation. Also involved in transcription activation mediated by the adenovirus E1A, a viral oncoprotein that deregulates transcription of key genes. Probably acts by linking transcription factors such as E1A, MYC or E2F1 to HAT complexes such as STAGA thereby allowing transcription activation. Probably not required in the steps following histone acetylation in processes of transcription activation. May be required for the mitotic checkpoint and normal cell cycle progression. Component of a SWR1-like complex that specifically mediates the removal of histone H2A.Z/H2AFZ from the nucleosome. {ECO:0000269|PubMed:11418595, ECO:0000269|PubMed:12138177, ECO:0000269|PubMed:12660246, ECO:0000269|PubMed:12743606, ECO:0000269|PubMed:14966270, ECO:0000269|PubMed:17967892, ECO:0000269|PubMed:24463511, ECO:0000269|PubMed:9708738}.
Subcellular locationNucleus {ECO:0000269|PubMed:11564863, ECO:0000269|PubMed:9708738}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9Y4A5
Gene Ontology
(Biological Process)
Complete annatation
beta-catenin-TCF complex assembly [GO:1904837];
DNA repair [GO:0006281];
histone acetylation [GO:0016573];
histone deubiquitination [GO:0016578];
histone H2A acetylation [GO:0043968];
histone H4 acetylation [GO:0043967];
regulation of transcription, DNA-templated [GO:0006355];
transcription, DNA-templated [GO:0006351]
Gene Ontology
(Molecular Function)
Complete annatation
kinase activity [GO:0016301];
phosphotransferase activity, alcohol group as acceptor [GO:0016773];
transcription cofactor activity [GO:0003712]
Gene Ontology
(Cellular Component)
Complete annatation
Golgi apparatus [GO:0005794];
NuA4 histone acetyltransferase complex [GO:0035267];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
PCAF complex [GO:0000125];
STAGA complex [GO:0030914];
Swr1 complex [GO:0000812];
transcription factor TFTC complex [GO:0033276]
Protein-protein interaction113900
Phylogenetic treeQ9Y4A5
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. CD30.1731429257041520.5965990035051010.70164114492512
AZA vs. DISU0.06339385465420580.8021064435319380.983438610789082
AZA vs. IL70.07584188220606320.692737001435230.999311006273513
AZA vs. SAHA-0.04092915882420240.8669504914230610.968869233250746
DISU vs. CD3-0.1226642665762710.7356074300371180.815288549825445
DISU vs. IL70.003209100569560670.9898253609254460.999065831444279
DISU vs. SAHA-0.1021032721042570.7257021537024160.919234926748118
DMSO vs. AZA0.1313022628869810.4323480048162011
DMSO vs. CD3-0.05393470013185960.866000594624610.907941585549324
DMSO vs. DISU0.06589115076178370.7868917022954540.973311777316403
DMSO vs. IL7-0.04801464861416840.789022577715810.957257205703634
DMSO vs. SAHA-0.177901020297190.4505595634200330.78167182920494
HIV vs. Mock in Activation0.3922931203089430.5311228213930360.999983755607037
HIV vs. Mock in Latency0.1180011778997560.4735590493203220.999834320637052
IL7 vs. CD3-0.09112328876960640.7765941097093190.85181218277169
SAHA vs. CD3-0.2380372656888490.5023519469492170.611259090878055
SAHA vs. IL7-0.119999385172250.622188470882080.811742168086937
(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 -0.381518 0.0109943
(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
0.811 0.826 0.779 0.891 0.939
(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

HIV Partner Interaction Type PubMed
Tat associates with 19818711
Tat interacts with 19454010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa05166 HTLV-I infection - Homo sapiens (human)
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