Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0000700
UniProt IDO75534
Primary gene name(s)CSDE1
Synonym gene name(s)D1S155E, KIAA0885, NRU, UNR
Protein nameCold shock domain-containing protein E1
Protein functionRNA-binding protein. Required for internal initiation of translation of human rhinovirus RNA. May be involved in translationally coupled mRNA turnover. Implicated with other RNA-binding proteins in the cytoplasmic deadenylation/translational and decay interplay of the FOS mRNA mediated by the major coding-region determinant of instability, mCRD domain. {ECO:0000269|PubMed:11051545, ECO:0000269|PubMed:15314026}.
Subcellular locationCytoplasm.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: O75534
Gene Ontology
(Biological Process)
Complete annatation
male gonad development [GO:0008584];
nuclear-transcribed mRNA catabolic process, no-go decay [GO:0070966];
regulation of transcription, DNA-templated [GO:0006355]
Gene Ontology
(Molecular Function)
Complete annatation
DNA binding [GO:0003677];
poly(A RNA binding [GO:0044822]
Gene Ontology
(Cellular Component)
Complete annatation
CRD-mediated mRNA stability complex [GO:0070937];
cytoplasm [GO:0005737];
Golgi apparatus [GO:0005794];
mitochondrial inner membrane [GO:0005743];
plasma membrane [GO:0005886]
Protein-protein interaction113583
Phylogenetic treeO75534
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
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. CD30.4007779330584740.2220244315991960.33070954808779
AZA vs. DISU0.1387915887450080.583854313799440.955158276076142
AZA vs. IL7-0.03628517428174090.8496716754976470.999311006273513
AZA vs. SAHA-0.3974451887881880.1036025543072130.408288863693314
DISU vs. CD3-0.2743214542134680.4554439930834550.585432143919162
DISU vs. IL7-0.1841019123822680.4655311879382020.805202276094737
DISU vs. SAHA-0.5355062938089260.06624037229736250.325393954007024
DMSO vs. AZA-0.09255963706981390.5785743640282551
DMSO vs. CD3-0.5048158103598140.1155610237031250.191745924151967
DMSO vs. DISU-0.2333235545374830.3400048936661510.838279329113978
DMSO vs. IL70.06351293327638730.7227697679174710.943721406199177
DMSO vs. SAHA-0.3122578911800750.1855398437614560.520287365695539
HIV vs. Mock in Activation-0.01029835016883790.9867921737448380.999983755607037
HIV vs. Mock in Latency0.1051575185089760.5217714570759770.999834320637052
IL7 vs. CD3-0.4287091594511570.1835169746845480.30220566005561
SAHA vs. CD3-0.8235627899067280.02167569724216740.0493433168337558
SAHA vs. IL7-0.3651218882722440.1338647201945850.342419275787065
(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 -0.309429 0.0156168
(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
0.95 0.971 0.785 0.723 0.921
(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
1WFQ NMR - A=15-90.
1X65 NMR - A=348-423.
2YTV NMR - A=673-738.
2YTX NMR - A=175-258.
2YTY NMR - A=508-582.

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

HIV Partner Interaction Type PubMed
Pr55(Gag) incorporates 25631074
nucleocapsid interacts with 22190034

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found
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