Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0006408
UniProt IDP62875
Primary gene name(s)POLR2L
Synonym gene name(s)unknown
Protein nameDNA-directed RNA polymerases I, II, and III subunit RPABC5
Protein functionDNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non-coding RNAs, and a small RNAs, such as 5S rRNA and tRNAs, respectively. Pol II is the central component of the basal RNA polymerase II transcription machinery. Pols are composed of mobile elements that move relative to each other. In Pol II, POLR2L/RBP10 is part of the core element with the central large cleft, By similarity. {ECO:0000250, ECO:0000269|PubMed:9852112}.
Subcellular locationNucleus {ECO:0000269|PubMed:16809778, ECO:0000269|PubMed:9852112}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P62875
Gene Ontology
(Biological Process)
Complete annatation
7-methylguanosine mRNA capping [GO:0006370];
fibroblast growth factor receptor signaling pathway [GO:0008543];
gene expression [GO:0010467];
gene silencing by RNA [GO:0031047];
mRNA splicing, via spliceosome [GO:0000398];
positive regulation of gene expression, epigenetic [GO:0045815];
positive regulation of type I interferon production [GO:0032481];
positive regulation of viral transcription [GO:0050434];
regulation of transcription from RNA polymerase I promoter [GO:0006356];
snRNA transcription from RNA polymerase II promoter [GO:0042795];
somatic stem cell population maintenance [GO:0035019];
termination of RNA polymerase I transcription [GO:0006363];
transcription-coupled nucleotide-excision repair [GO:0006283];
transcription elongation from RNA polymerase II promoter [GO:0006368];
transcription elongation from RNA polymerase I promoter [GO:0006362];
transcription from RNA polymerase III promoter [GO:0006383];
transcription from RNA polymerase II promoter [GO:0006366];
transcription initiation from RNA polymerase II promoter [GO:0006367];
transcription initiation from RNA polymerase I promoter [GO:0006361]
Gene Ontology
(Molecular Function)
Complete annatation
DNA binding [GO:0003677];
DNA-directed RNA polymerase activity [GO:0003899];
zinc ion binding [GO:0008270]
Gene Ontology
(Cellular Component)
Complete annatation
cytosol [GO:0005829];
DNA-directed RNA polymerase I complex [GO:0005736];
DNA-directed RNA polymerase II, core complex [GO:0005665];
DNA-directed RNA polymerase III complex [GO:0005666];
nucleoplasm [GO:0005654];
nucleus [GO:0005634]
Protein-protein interaction111437
Phylogenetic treeP62875
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      Yes - Two siRNA pools inhibit HIV replication and inhibition of Tat-mediated transactivation of the HIV LTR is also observed
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. CD30.4703422749388570.1519737664607490.245656130313467
AZA vs. DISU-0.3372778002389260.2937183135031590.859189309662628
AZA vs. IL70.1369328897528050.4795014073942560.999311006273513
AZA vs. SAHA-0.1807981891872790.5209233419675840.833853505024886
DISU vs. CD3-0.8187887917441320.02513690675472210.0620051926723419
DISU vs. IL70.4640727358692220.1263418547255530.465559388899467
DISU vs. SAHA0.1590855943532820.6692424891411920.899264760507035
DMSO vs. AZA-0.1260131272421070.4961196991593191
DMSO vs. CD3-0.6051198039838120.05949995326738240.111419116963719
DMSO vs. DISU0.2099545494678830.501129064365040.908808857045484
DMSO vs. IL70.2701015442106290.1361318911564150.633860229772759
DMSO vs. SAHA-0.06044600810928610.8243199273877170.952182804864714
HIV vs. Mock in Activation0.2009430454651480.7501204588273150.999983755607037
HIV vs. Mock in Latency-0.276760930985130.2650233651412930.999834320637052
IL7 vs. CD3-0.3282616512641760.3078749722588220.445825675555502
SAHA vs. CD3-0.6738331277873590.05818559800797070.112244874805443
SAHA vs. IL7-0.3191890582931070.2282919610529780.468840286395253
(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) unknown
(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 0.00982092 0.963786
(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
1.002 0.835 0.751 0.641 0.834
(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
5IY6 EM 7.2Å J=1-67.
5IY7 EM 8.6Å J=1-67.
5IY8 EM 7.9Å J=1-67.
5IY9 EM 6.3Å J=1-67.
5IYA EM 5.4Å J=1-67.
5IYB EM 3.9Å J=1-67.
5IYC EM 3.9Å J=1-67.
5IYD EM 3.9Å J=1-67.

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

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa00230 Purine metabolism - Homo sapiens (human)
hsa00240 Pyrimidine metabolism - Homo sapiens (human)
hsa01100 Metabolic pathways - Homo sapiens (human)
hsa03020 RNA polymerase - Homo sapiens (human)
hsa04623 Cytosolic DNA-sensing pathway - Homo sapiens (human)
hsa05016 Huntington's disease - Homo sapiens (human)
hsa05169 Epstein-Barr virus infection - Homo sapiens (human)
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