Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002513
UniProt IDQ8NCN4
Primary gene name(s)RNF169
Synonym gene name(s)KIAA1991
Protein nameE3 ubiquitin-protein ligase RNF169
Protein functionProbable E3 ubiquitin-protein ligase that acts as a negative regulator of double-strand breaks, DSBs repair following DNA damage. Recruited to DSB repair sites by recognizing and binding ubiquitin catalyzed by RNF168 and competes with TP53BP1 and BRCA1 for association with RNF168-modified chromatin, thereby acting as a negative regulator of DSBs repair. E3 ubiquitin-protein ligase activity is not required for regulation of DSBs repair. {ECO:0000269|PubMed:22492721, ECO:0000269|PubMed:22733822, ECO:0000269|PubMed:22742833}.
Subcellular locationNucleus, nucleoplasm {ECO:0000269|PubMed:22492721, ECO:0000269|PubMed:22733822, ECO:0000269|PubMed:22742833}. Note=Localizes to sites of double-strand breaks, DSBs following DNA damage. Recruited to DSBs via recognition of RNF168-dependent ubiquitin products.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q8NCN4
Gene Ontology
(Biological Process)
Complete annatation
cellular response to DNA damage stimulus [GO:0006974];
negative regulation of double-strand break repair [GO:2000780];
protein ubiquitination [GO:0016567]
Gene Ontology
(Molecular Function)
Complete annatation
K63-linked polyubiquitin binding [GO:0070530];
ligase activity [GO:0016874];
nucleosome binding [GO:0031491];
zinc ion binding [GO:0008270]
Gene Ontology
(Cellular Component)
Complete annatation
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
site of double-strand break [GO:0035861]
Protein-protein interaction129022
Phylogenetic treeQ8NCN4
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. CD3-0.3713435040009290.2591960699058480.372838630045899
AZA vs. DISU0.4365447693227620.08828802506408630.617279076909108
AZA vs. IL7-0.04048639802636120.8343217870080640.999311006273513
AZA vs. SAHA-0.2411364075388070.326044768336640.697501701161584
DISU vs. CD30.7946353327420720.03271147705119510.0768296673527136
DISU vs. IL7-0.4857308595092530.05643872623506660.312624468400198
DISU vs. SAHA-0.6764415532014850.02134908976433170.16959818067843
DMSO vs. AZA-0.04323860018705180.7982054849598771
DMSO vs. CD30.3176326882661740.3231426363190080.436291792090506
DMSO vs. DISU-0.4813023066398660.05123266973787950.445067187377236
DMSO vs. IL70.009878154710729470.9564995708988020.992145238637282
DMSO vs. SAHA-0.2050768736145210.3870753294678340.734353916097921
HIV vs. Mock in Activation0.3279911390599840.6011322592875840.999983755607037
HIV vs. Mock in Latency0.1446305234981160.3848051179985830.999834320637052
IL7 vs. CD30.3383651333597030.2953708585483970.433087926144332
SAHA vs. CD30.1052736537099190.767792534770330.83385943348147
SAHA vs. IL7-0.2043898081152110.4036700729210150.65017861930359
(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) TRUE
(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 -0.401481 0.01774
(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
0.747 0.79 0.561 0.567 0.632
(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

not found

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found