Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000619
UniProt IDQ9UBD9
Primary gene name(s)CLCF1
Synonym gene name(s)BSF3, CLC, NNT1
Protein nameCardiotrophin-like cytokine factor 1
Protein functionCytokine with B-cell stimulating capability. Binds to and activates the ILST/gp130 receptor. {ECO:0000269|PubMed:10448081, ECO:0000269|PubMed:10500198}.
Subcellular locationSecreted {ECO:0000250}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9UBD9
Gene Ontology
(Biological Process)
Complete annatation
B cell differentiation [GO:0030183];
cell surface receptor signaling pathway [GO:0007166];
cytokine-mediated signaling pathway [GO:0019221];
JAK-STAT cascade [GO:0007259];
negative regulation of neuron apoptotic process [GO:0043524];
positive regulation of astrocyte differentiation [GO:0048711];
positive regulation of B cell proliferation [GO:0030890];
positive regulation of cell proliferation [GO:0008284];
positive regulation of immunoglobulin production [GO:0002639];
positive regulation of isotype switching to IgE isotypes [GO:0048295];
positive regulation of tyrosine phosphorylation of Stat3 protein [GO:0042517]
Gene Ontology
(Molecular Function)
Complete annatation
ciliary neurotrophic factor receptor binding [GO:0005127];
cytokine activity [GO:0005125];
growth factor activity [GO:0008083];
protein heterodimerization activity [GO:0046982];
receptor binding [GO:0005102]
Gene Ontology
(Cellular Component)
Complete annatation
CNTFR-CLCF1 complex [GO:0097059];
CRLF-CLCF1 complex [GO:0097058];
extracellular exosome [GO:0070062];
extracellular region [GO:0005576];
intracellular [GO:0005622]
Protein-protein interaction117075
Phylogenetic treeQ9UBD9
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. CD31.375058501749740.00172678806776350.0058406978809092
AZA vs. DISU0.07735169571276490.7710898283409110.976444104025318
AZA vs. IL7-0.1220696715846080.5799001358358690.999311006273513
AZA vs. SAHA-0.5647242014495550.03161441137746570.205677875314595
DISU vs. CD3-1.311953137764550.002364353908365420.00863587855941372
DISU vs. IL7-0.2088939523824040.4287742074534990.783677397837234
DISU vs. SAHA-0.6405163282729080.03541730686572130.229186016218671
DMSO vs. AZA0.1032693517529060.6278090448723251
DMSO vs. CD3-1.285304670242750.0018265214816080.00575780416832487
DMSO vs. DISU0.02361040861862810.9264698435615520.990346186868534
DMSO vs. IL7-0.2178200933862470.2673380383890640.767539423873874
DMSO vs. SAHA-0.6723471514187120.007898395383288180.0770567047467121
HIV vs. Mock in Activation1.025742402080980.1074784386118150.999983755607037
HIV vs. Mock in Latency-0.191569192698610.3176664894115440.999834320637052
IL7 vs. CD3-1.495141667722390.0002838774592495150.00143394267535789
SAHA vs. CD3-1.965424981672777.20225959616183e-064.7272670781428e-05
SAHA vs. IL7-0.4454200539696460.08777698738408360.265532873334874
(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) 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 0.298678 0.873013
(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

not found

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
hsa04060 Cytokine-cytokine receptor interaction - Homo sapiens (human)