Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0012655
UniProt IDP42771
Primary gene name(s)CDKN2A
Synonym gene name(s)CDKN2, MTS1
Protein nameCyclin-dependent kinase inhibitor 2A
Protein functionActs as a negative regulator of the proliferation of normal cells by interacting strongly with CDK4 and CDK6. This inhibits their ability to interact with cyclins D and to phosphorylate the retinoblastoma protein. {ECO:0000269|PubMed:16782892, ECO:0000269|PubMed:7972006}.
Subcellular locationCytoplasm {ECO:0000269|PubMed:17658461}. Nucleus {ECO:0000269|PubMed:17658461}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P42771
Gene Ontology
(Biological Process)
Complete annatation
cell cycle arrest [GO:0007050];
cellular senescence [GO:0090398];
G1/S transition of mitotic cell cycle [GO:0000082];
negative regulation of cell growth [GO:0030308];
negative regulation of cell-matrix adhesion [GO:0001953];
negative regulation of cell proliferation [GO:0008285];
negative regulation of cyclin-dependent protein serine/threonine kinase activity [GO:0045736];
negative regulation of NF-kappaB transcription factor activity [GO:0032088];
negative regulation of phosphorylation [GO:0042326];
negative regulation of transcription, DNA-templated [GO:0045892];
positive regulation of cellular senescence [GO:2000774];
positive regulation of macrophage apoptotic process [GO:2000111];
positive regulation of smooth muscle cell apoptotic process [GO:0034393];
Ras protein signal transduction [GO:0007265];
replicative senescence [GO:0090399];
senescence-associated heterochromatin focus assembly [GO:0035986]
Gene Ontology
(Molecular Function)
Complete annatation
Gene Ontology
(Cellular Component)
Complete annatation
Protein-protein interaction107463
Phylogenetic treeP42771
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. CD3-0.6063374440815460.0873537145454680.157581709829957
AZA vs. DISU-0.8151039473521270.02389591358919220.364558428539008
AZA vs. IL70.2091404081211350.4667256934401280.999311006273513
AZA vs. SAHA-0.646561403947580.03336997611150220.211441370283642
DISU vs. CD3-0.2201582398553950.5925874413495360.70469099802011
DISU vs. IL71.01361613195950.004421944721583640.0695598136272925
DISU vs. SAHA0.1718786162075880.637758013707690.887584359090275
DMSO vs. AZA-0.1019929662595050.7783440759862021
DMSO vs. CD30.5038375544078780.2374988641969460.341926642691799
DMSO vs. DISU0.714403551739290.08990897137519420.551625749391428
DMSO vs. IL70.3168566754351920.3783018216268160.832872524258073
DMSO vs. SAHA-0.5522887338869630.1409471545713210.45004545901364
HIV vs. Mock in Activation0.7090518576875830.2638358084003770.999983755607037
HIV vs. Mock in Latency-0.117259994039690.7086937642370390.999834320637052
IL7 vs. CD30.8185575821909040.01760876710815120.0473236737665206
SAHA vs. CD3-0.06189756152445430.8625343711586170.902979713328264
SAHA vs. IL7-0.8569091549459220.003976079914883130.0326623589302171
(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 0.0942513 0.571181
(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
unknown unknown unknown unknown unknown
(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
1A5E NMR - A=1-156.
1BI7 X-ray 3.4Å B=1-156.
1DC2 NMR - A=1-156.
2A5E NMR - A=1-156.

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

HIV Partner Interaction Type PubMed
Nef interacts with 22190034
Tat inhibited by 18418067
reverse transcriptase inhibited by 20604950
Envelope surface glycoprotein gp120 upregulates 24162774
Tat downregulates 25705251

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa01522 Endocrine resistance - Homo sapiens (human)
hsa01524 Platinum drug resistance - Homo sapiens (human)
hsa04110 Cell cycle - Homo sapiens (human)
hsa04115 p53 signaling pathway - Homo sapiens (human)
hsa05166 HTLV-I infection - Homo sapiens (human)
hsa05200 Pathways in cancer - Homo sapiens (human)
hsa05203 Viral carcinogenesis - Homo sapiens (human)
hsa05206 MicroRNAs in cancer - Homo sapiens (human)
hsa05212 Pancreatic cancer - Homo sapiens (human)
hsa05214 Glioma - Homo sapiens (human)
hsa05218 Melanoma - Homo sapiens (human)
hsa05219 Bladder cancer - Homo sapiens (human)
hsa05220 Chronic myeloid leukemia - Homo sapiens (human)
hsa05223 Non-small cell lung cancer - Homo sapiens (human)