Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001516
UniProt IDQ15004
Primary gene name(s)KIAA0101
Synonym gene name(s)NS5ATP9, PAF
Protein namePCNA-associated factor
Protein functionPCNA-binding protein that acts as a regulator of DNA repair during DNA replication. Following DNA damage, the interaction with PCNA is disrupted, facilitating the interaction between monoubiquitinated PCNA and the translesion DNA synthesis DNA polymerase eta, POLH at stalled replisomes, facilitating the bypass of replication-fork-blocking lesions. Also acts as a regulator of centrosome number. {ECO:0000269|PubMed:21673012, ECO:0000269|PubMed:23000965}.
Subcellular locationNucleus {ECO:0000269|PubMed:11313979, ECO:0000269|PubMed:16288740, ECO:0000269|PubMed:21673012, ECO:0000269|PubMed:23000965}. Cytoplasm, perinuclear region {ECO:0000269|PubMed:21673012}. Note=Following DNA damage, localizes to DNA damage sites, PubMed:21628590. Colocalizes with centrosomes in perinuclear region, PubMed:21673012.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q15004
Gene Ontology
(Biological Process)
Complete annatation
cellular response to DNA damage stimulus [GO:0006974];
centrosome organization [GO:0051297];
DNA replication [GO:0006260];
regulation of cell cycle [GO:0051726];
response to UV [GO:0009411];
translesion synthesis [GO:0019985]
Gene Ontology
(Molecular Function)
Complete annatation
chromatin binding [GO:0003682]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
perinuclear region of cytoplasm [GO:0048471]
Protein-protein interaction115114
Phylogenetic treeQ15004
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. CD31.533279027998160.3929609708050120.514287984933566
AZA vs. DISU-0.2666677744567050.6603271623209690.961067070080747
AZA vs. IL70.5843489212300110.3826167876024140.999311006273513
AZA vs. SAHA-0.570774921820680.2584560475014350.631130082751455
DISU vs. CD3-1.813465888462890.2992580717259960.430440474541762
DISU vs. IL70.8419254695433240.2483457442225030.634611411772023
DISU vs. SAHA-0.3033247221934540.606427442370840.875931376650463
DMSO vs. AZA-0.0656667913332680.903193792266151
DMSO vs. CD3-1.608147098582960.369359445969280.48339849305249
DMSO vs. DISU0.1999722957377480.7453823151118120.969482258605607
DMSO vs. IL70.6566478751784010.3328960554270760.804811328709235
DMSO vs. SAHA-0.5129425608122650.3198074851948780.673065020160871
HIV vs. Mock in Activation-0.06740667091293370.9797922420750940.999983755607037
HIV vs. Mock in Latency0.3496428733292050.3820414959281610.999834320637052
IL7 vs. CD3-0.9414687652441160.5855156954476520.704404028851661
SAHA vs. CD3-2.128902859901630.2397863288269640.348062028069962
SAHA vs. IL7-1.158431386110790.07966488476589130.250180931866884
(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
3.3 0.000972646 1.9 0.030200612 2 0.065942604
(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 0.755418 0.000305467
(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
0.161 9.30E-06

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
1.024 1.428 0.574 0.363 1.193
(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
202503_s_at 2.97 Yes upregulated in CD4+ cells
202503_s_at 6.11 Yes upregulated in CD8+ cells
211713_x_at 2.35 Yes upregulated in CD8+ cells

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
4D2G X-ray 2.6Å D/E=52-69.

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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