Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002550
UniProt IDP62753
Primary gene name(s)RPS6
Synonym gene name(s)unknown
Protein name40S ribosomal protein S6
Protein functionMay play an important role in controlling cell growth and proliferation through the selective translation of particular classes of mRNA.
Subcellular locationunknown
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P62753
Gene Ontology
(Biological Process)
Complete annatation
activation-induced cell death of T cells [GO:0006924];
erythrocyte development [GO:0048821];
G1/S transition of mitotic cell cycle [GO:0000082];
gastrulation [GO:0007369];
glucose homeostasis [GO:0042593];
mitotic cell cycle checkpoint [GO:0007093];
mitotic nuclear division [GO:0007067];
negative regulation of apoptotic process [GO:0043066];
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay [GO:0000184];
oogenesis stage [GO:0022605];
placenta development [GO:0001890];
positive regulation of apoptotic process [GO:0043065];
ribosomal small subunit biogenesis [GO:0042274];
rRNA processing [GO:0006364];
SRP-dependent cotranslational protein targeting to membrane [GO:0006614];
T cell differentiation in thymus [GO:0033077];
T cell proliferation involved in immune response [GO:0002309];
TOR signaling [GO:0031929];
translation [GO:0006412];
translational initiation [GO:0006413];
viral transcription [GO:0019083]
Gene Ontology
(Molecular Function)
Complete annatation
poly(A RNA binding [GO:0044822];
protein kinase binding [GO:0019901];
structural constituent of ribosome [GO:0003735]
Gene Ontology
(Cellular Component)
Complete annatation
cell body [GO:0044297];
cytoplasm [GO:0005737];
cytoplasmic ribonucleoprotein granule [GO:0036464];
cytosol [GO:0005829];
cytosolic small ribosomal subunit [GO:0022627];
dendrite [GO:0030425];
intracellular ribonucleoprotein complex [GO:0030529];
membrane [GO:0016020];
nucleolus [GO:0005730];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
perinuclear region of cytoplasm [GO:0048471];
polysome [GO:0005844];
small ribosomal subunit [GO:0015935]
Protein-protein interaction112108
Phylogenetic treeP62753
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. CD3-0.2564768870965830.4326239854295250.55399394293915
AZA vs. DISU-0.1749447309238860.4880964379313950.931674568273876
AZA vs. IL7-0.005408039029936890.9774580701741190.999311006273513
AZA vs. SAHA-0.2393258353264180.32512103687350.696412517589326
DISU vs. CD30.06856209087022140.8496283503744260.898505525013617
DISU vs. IL70.1607959842504230.5227720059902580.838963454163561
DISU vs. SAHA-0.06348369030633440.8271493822212240.955481976816337
DMSO vs. AZA-0.09007521713190920.5885352875711681
DMSO vs. CD30.1517930488583250.6342953654738980.725969574750014
DMSO vs. DISU0.08205360038410490.7360077211927290.967658472195267
DMSO vs. IL70.09232134400434880.6059539455616780.913549332170244
DMSO vs. SAHA-0.1557499547547180.5074583657604190.818074429013708
HIV vs. Mock in Activation-0.1933089980759780.7559554166027580.999983755607037
HIV vs. Mock in Latency-0.3146021212399710.05561458454945860.924293547407429
IL7 vs. CD30.2599937824844570.4179285900669510.554723286199292
SAHA vs. CD3-0.008486658400733150.980788731643780.987076678634417
SAHA vs. IL7-0.2381196418207560.3270110225974020.576705799110696
(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 -0.598218 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
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
0.955 0.971 0.899 0.909 0.883
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
0.7 0.0012 -0.2 0.1454 -0.03 0.3945 Cell growth and proliferation at 4 hpi
(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
4UG0 EM - SG=1-249.
4V6X EM 5.0Å AG=1-249.
5A2Q EM 3.9Å G=1-249.
5AJ0 EM 3.5Å BG=1-249.
5FLX EM 3.9Å G=1-249.

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

HIV Partner Interaction Type PubMed
Rev interacts with 22174317
Envelope surface glycoprotein gp120 complexes with 23125841
matrix induces phosphorylation of 25704763
Gag-Pol complexes with 23125841
Pr55(Gag) complexes with 23125841
Pr55(Gag) interacts with 26362536
Nef complexes with 23125841

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa01521 EGFR tyrosine kinase inhibitor resistance - Homo sapiens (human)
hsa03010 Ribosome - Homo sapiens (human)
hsa04066 HIF-1 signaling pathway - Homo sapiens (human)
hsa04150 mTOR signaling pathway - Homo sapiens (human)
hsa04151 PI3K-Akt signaling pathway - Homo sapiens (human)
hsa04910 Insulin signaling pathway - Homo sapiens (human)
hsa05205 Proteoglycans in cancer - Homo sapiens (human)