Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001244
UniProt IDQ6NXT2
Primary gene name(s)H3F3C
Synonym gene name(s)unknown
Protein nameHistone H3.3C
Protein functionCore component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. Hominid-specific H3.5/H3F3C preferentially colocalizes with euchromatin, and it is associated with actively transcribed genes. {ECO:0000269|PubMed:21274551}.
Subcellular locationNucleus. Chromosome.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q6NXT2
Gene Ontology
(Biological Process)
Complete annatation
nucleosome assembly [GO:0006334];
positive regulation of cell growth [GO:0030307]
Gene Ontology
(Molecular Function)
Complete annatation
nucleosomal DNA binding [GO:0031492]
Gene Ontology
(Cellular Component)
Complete annatation
nuclear euchromatin [GO:0005719];
nucleosome [GO:0000786]
Protein-protein interaction136289
Phylogenetic treeQ6NXT2
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. CD31.100466355962550.001098825314982510.00395854238804128
AZA vs. DISU0.0869880834358960.7430322488451570.976008954784031
AZA vs. IL70.1567543364584150.4522640242125920.999311006273513
AZA vs. SAHA0.4150815086953090.106355128490720.414691465822325
DISU vs. CD3-1.027124743272470.005571641626660460.0177337259037753
DISU vs. IL70.05898726319298020.8225977169828830.961888037815464
DISU vs. SAHA0.3306509377338280.2705373823605530.649039937847165
DMSO vs. AZA0.4880801215388560.1484070340241481
DMSO vs. CD3-0.6407757632754140.04914243084932860.0949994508847857
DMSO vs. DISU0.3946664724100740.2370434230553820.754433872321987
DMSO vs. IL7-0.3237354481285970.3508648090103290.816662643030748
DMSO vs. SAHA-0.0728354081951220.8276093528711260.9531484454471
HIV vs. Mock in Activation-0.09870929810225190.8749693492669310.999983755607037
HIV vs. Mock in Latency-0.0894556703899140.6389592125269920.999834320637052
IL7 vs. CD3-0.9386981507604220.004390477213305650.0150540634750128
SAHA vs. CD3-0.7086466150180940.04883261368563140.0970342152218441
SAHA vs. IL70.2562936174676180.3152861358361890.564063936413312
(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 -1.062994056
(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 0.289575 0.0372778
(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
unknown unknown unknown unknown unknown
(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
3KV4 X-ray 2.1Å B=2-25.
4Z5T X-ray 2.8Å A/E=1-135.
5BWO X-ray 2.3Å B=6-14.
5F6K X-ray 2.4Å M=2-10.
5I3L X-ray 1.8Å C=2-21.

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
hsa05034 Alcoholism - Homo sapiens (human)
hsa05202 Transcriptional misregulation in cancer - Homo sapiens (human)
hsa05322 Systemic lupus erythematosus - Homo sapiens (human)
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