Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002448
UniProt IDQ09028
Primary gene name(s)RBBP4
Synonym gene name(s)RBAP48
Protein nameHistone-binding protein RBBP4
Protein functionCore histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA. Component of several complexes which regulate chromatin metabolism. These include the chromatin assembly factor 1, CAF-1 complex, which is required for chromatin assembly following DNA replication and DNA repair; the core histone deacetylase, HDAC complex, which promotes histone deacetylation and consequent transcriptional repression; the nucleosome remodeling and histone deacetylase complex, the NuRD complex, which promotes transcriptional repression by histone deacetylation and nucleosome remodeling; the PRC2/EED-EZH2 complex, which promotes repression of homeotic genes during development; and the NURF, nucleosome remodeling factor complex. {ECO:0000269|PubMed:10866654}.
Subcellular locationNucleus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q09028
Gene Ontology
(Biological Process)
Complete annatation
ATP-dependent chromatin remodeling [GO:0043044];
cell cycle [GO:0007049];
CENP-A containing nucleosome assembly [GO:0034080];
chromatin assembly [GO:0031497];
chromatin remodeling [GO:0006338];
DNA replication [GO:0006260];
DNA replication-dependent nucleosome assembly [GO:0006335];
DNA replication-independent nucleosome assembly [GO:0006336];
negative regulation of cell proliferation [GO:0008285];
negative regulation of gene expression, epigenetic [GO:0045814];
regulation of cell cycle [GO:0051726];
regulation of signal transduction by p53 class mediator [GO:1901796];
regulation of transcription, DNA-templated [GO:0006355];
response to growth hormone [GO:0060416];
transcription, DNA-templated [GO:0006351]
Gene Ontology
(Molecular Function)
Complete annatation
histone binding [GO:0042393];
histone deacetylase activity [GO:0004407];
histone deacetylase binding [GO:0042826]
Gene Ontology
(Cellular Component)
Complete annatation
CAF-1 complex [GO:0033186];
ESC/E(Z complex [GO:0035098];
nuclear chromatin [GO:0000790];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
NuRD complex [GO:0016581];
NURF complex [GO:0016589];
protein complex [GO:0043234];
Sin3 complex [GO:0016580]
Protein-protein interaction111863
Phylogenetic treeQ09028
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. CD30.4692978905881080.1539753287588530.248231485191297
AZA vs. DISU0.01150437509466710.9636988976206320.996672625553768
AZA vs. IL70.1031834660203410.5910936291090250.999311006273513
AZA vs. SAHA-0.2455071857430720.3139462358219510.685759391215778
DISU vs. CD3-0.4696081321425750.1960151880413060.313954286903383
DISU vs. IL70.08272836739462550.7422583580228960.936912396147966
DISU vs. SAHA-0.2561767554231640.3793692837085550.747186941292686
DMSO vs. AZA-0.1003455373703810.5486779589541631
DMSO vs. CD3-0.5809271807097690.07101178707528120.128859620849086
DMSO vs. DISU-0.1137282142053970.6409421202074630.9472626202031
DMSO vs. IL70.2108072593771560.2407306620507770.745473115343036
DMSO vs. SAHA-0.1521559196764320.518283386420450.822627767499035
HIV vs. Mock in Activation0.03519836221860280.9549575326766940.999983755607037
HIV vs. Mock in Latency0.03235819623346460.8443040921017120.999834320637052
IL7 vs. CD3-0.3578400606076020.2660947262093340.400099109624104
SAHA vs. CD3-0.7395323517810690.03798759750712230.0791255140887814
SAHA vs. IL7-0.3523014131184690.1481857032730580.36386240285683
(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
-0.3266 0.04681

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 -0.334802 0.015357
(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
1.029 0.982 1.021 0.955 1.028
(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
2XU7 X-ray 1.9Å A/B=1-425.
3GFC X-ray 2.3Å A=1-425.
4PBY X-ray 2.5Å A/B=1-425.
4PBZ X-ray 2.1Å A=1-425.
4PC0 X-ray 2.5Å A/B=1-425.
4R7A X-ray 1.8Å B=1-425.
5FXY X-ray 3.2Å A/C/E/G=1-425.

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

HIV Partner Interaction Type PubMed
Tat interacts with 19454010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found
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