Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000470
UniProt IDP83916
Primary gene name(s)CBX1
Synonym gene name(s)CBX
Protein nameChromobox protein homolog 1
Protein functionComponent of heterochromatin. Recognizes and binds histone H3 tails methylated at 'Lys-9', leading to epigenetic repression. Interaction with lamin B receptor, LBR can contribute to the association of the heterochromatin with the inner nuclear membrane.
Subcellular locationNucleus {ECO:0000269|PubMed:10460410, ECO:0000269|PubMed:9169582}. Note=Unassociated with chromosomes during mitosis.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P83916
Gene Ontology
(Biological Process)
Complete annatation
negative regulation of transcription, DNA-templated [GO:0045892]
Gene Ontology
(Molecular Function)
Complete annatation
chromatin binding [GO:0003682];
enzyme binding [GO:0019899];
histone methyltransferase binding [GO:1990226]
Gene Ontology
(Cellular Component)
Complete annatation
chromatin [GO:0000785];
chromocenter [GO:0010369];
chromosome, centromeric region [GO:0000775];
female pronucleus [GO:0001939];
male pronucleus [GO:0001940];
nuclear chromosome, telomeric region [GO:0000784];
nuclear heterochromatin [GO:0005720];
nucleoplasm [GO:0005654];
pericentric heterochromatin [GO:0005721];
spindle [GO:0005819]
Protein-protein interaction116151
Phylogenetic treeP83916
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. CD30.4374833214615730.1896561186467230.292668887093623
AZA vs. DISU0.1061705221537270.6760597486267250.96445964444266
AZA vs. IL70.2254343643064740.2424361308590350.993092391402121
AZA vs. SAHA0.2262389103098060.3551258252168250.724581811856781
DISU vs. CD3-0.3432942703078130.3459958805192080.479566994620006
DISU vs. IL70.1100549586006960.6629778453121930.905205194634448
DISU vs. SAHA0.1211243836062680.6804951688619830.904604884565563
DMSO vs. AZA-0.1157275778009230.4918505423057411
DMSO vs. CD3-0.5619401479431430.08459516062020220.149079838909736
DMSO vs. DISU-0.223151687046340.3626477656325630.848385403749384
DMSO vs. IL70.3480676138923190.05387633136450840.457106757678864
DMSO vs. SAHA0.334140035367490.1579535791809740.479660432528396
HIV vs. Mock in Activation0.166551892481350.7991328208584920.999983755607037
HIV vs. Mock in Latency-0.00623421138915110.9700405334962240.999834320637052
IL7 vs. CD3-0.2042530802329320.5299961912343560.656529822194776
SAHA vs. CD3-0.2361057521598570.5158767643505870.623606397816292
SAHA vs. IL7-0.002592875065083810.9915344662104710.996359612269625
(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 0.0350652 0.851087
(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
1.065 1.013 1.004 0.952 1.127
(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
2FMM X-ray 1.8Å A/B/C/D=104-175.
3F2U X-ray 1.8Å A=20-73.
3Q6S X-ray 1.9Å A/B/C/D=108-185.
5T1G X-ray 1.9Å A=108-185.

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
not found
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