Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000629
UniProt IDP49759
Primary gene name(s)CLK1
Synonym gene name(s)CLK
Protein nameDual specificity protein kinase CLK1
Protein functionDual specificity kinase acting on both serine/threonine and tyrosine-containing substrates. Phosphorylates serine- and arginine-rich, SR proteins of the spliceosomal complex and may be a constituent of a network of regulatory mechanisms that enable SR proteins to control RNA splicing. Phosphorylates: SRSF1, SRSF3 and PTPN1. Regulates the alternative splicing of tissue factor, F3 pre-mRNA in endothelial cells and adenovirus E1A pre-mRNA. {ECO:0000269|PubMed:10480872, ECO:0000269|PubMed:19168442}.
Subcellular locationNucleus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P49759
Gene Ontology
(Biological Process)
Complete annatation
cell proliferation [GO:0008283];
peptidyl-serine phosphorylation [GO:0018105];
peptidyl-threonine phosphorylation [GO:0018107];
protein autophosphorylation [GO:0046777];
regulation of RNA splicing [GO:0043484]
Gene Ontology
(Molecular Function)
Complete annatation
ATP binding [GO:0005524];
non-membrane spanning protein tyrosine kinase activity [GO:0004715];
protein serine/threonine/tyrosine kinase activity [GO:0004712];
protein serine/threonine kinase activity [GO:0004674]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
nucleus [GO:0005634]
Protein-protein interaction107606
Phylogenetic treeP49759
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
Brass et al., Science, 2008
      unknown
Smith et al., J. Immunol, 2010
      Negatively associated
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. CD3-0.9047085079500490.006055742605986850.0170567049320721
AZA vs. DISU0.330565932285750.192547741775220.780368775323152
AZA vs. IL7-0.3884048373519940.04339473422827520.62893156636807
AZA vs. SAHA-0.1120915899820980.6453417636033350.890709197309349
DISU vs. CD31.222647980600510.0009245112428539760.00387220963455983
DISU vs. IL7-0.7285975275213340.004233575375454880.0674985099133832
DISU vs. SAHA-0.4418852440746160.1302781163109670.464385404664756
DMSO vs. AZA-0.08776725706785080.5996129941877441
DMSO vs. CD30.8065195737636730.01209616430955760.0293160738937396
DMSO vs. DISU-0.4202754807612380.08750348310322330.544324683511643
DMSO vs. IL7-0.2934007058586820.1023339234779910.582032884634135
DMSO vs. SAHA-0.03169826028783250.8930337862196820.974253258822798
HIV vs. Mock in Activation-0.1487971138614220.8109562474975330.999983755607037
HIV vs. Mock in Latency0.09013588362457320.5842063595946650.999834320637052
IL7 vs. CD30.5237169107725340.1035231715722660.194758457951668
SAHA vs. CD30.7673190891665890.03066751883435570.0660133564967491
SAHA vs. IL70.2729794809772030.2625313724561930.508231200801433
(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
0.5364 0.01186

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 0.527662 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
1.071 0.812 0.578 0.681 0.72
(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
214683_s_at 1.34 No downregulated in CD8+ cells

Protein Overview       top

Drug-protein Interaction       (annotations from DrugBank)      top

Drugbank ID Drug Name Drug Status Pharmacological Action Drug Action
DB04367 Debromohymenialdisine experimental unknown unknown
DB08691 ethyl 3-[(E)-2-amino-1-cyanoethenyl]-6,7-dichloro-1-methyl-1H-indole-2-carboxylate experimental unknown unknown

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
1Z57 X-ray 1.7Å A=148-484.
2VAG X-ray 1.8Å A=148-484.
5J1V X-ray 2.5Å A/B/C=148-484.
5J1W X-ray 2.4Å A/B/C=148-484.

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
hsa05134 Legionellosis - Homo sapiens (human)
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