Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002039
UniProt IDQ9UBU9
Primary gene name(s)NXF1
Synonym gene name(s)TAP
Protein nameNuclear RNA export factor 1
Protein functionInvolved in the nuclear export of mRNA species bearing retroviral constitutive transport elements, CTE and in the export of mRNA from the nucleus to the cytoplasm, TAP/NFX1 pathway. The NXF1-NXT1 heterodimer is involved in the export of HSP70 mRNA in conjunction with ALYREF/THOC4 and THOC5 components of the TREX complex. ALYREF/THOC4-bound mRNA is thought to be transferred to the NXF1-NXT1 heterodimer for export. {ECO:0000269|PubMed:18364396, ECO:0000269|PubMed:19165146, ECO:0000269|PubMed:9660949}.
Subcellular locationNucleus, nucleoplasm {ECO:0000269|PubMed:19324961, ECO:0000269|PubMed:23826332}. Nucleus speckle {ECO:0000269|PubMed:19324961, ECO:0000269|PubMed:23826332}. Cytoplasm {ECO:0000269|PubMed:19324961}. Nucleus {ECO:0000269|PubMed:25662211}. Note=Localized predominantly in the nucleoplasm and at both the nucleoplasmic and cytoplasmic faces of the nuclear pore complex. Shuttles between the nucleus and the cytoplasm. Travels to the cytoplasm as part of the exon junction complex, EJC bound to mRNA. The association with the TREX complex seems to occur in regions surrounding nuclear speckles known as perispeckles, PubMed:23826332. Nucleus;
nuclear rim, PubMed:25662211. {ECO:0000269|PubMed:23826332, ECO:0000269|PubMed:25662211}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9UBU9
Gene Ontology
(Biological Process)
Complete annatation
mRNA export from nucleus [GO:0006406];
poly(A+ mRNA export from nucleus [GO:0016973];
RNA export from nucleus [GO:0006405];
viral process [GO:0016032]
Gene Ontology
(Molecular Function)
Complete annatation
mRNA binding [GO:0003729];
nucleocytoplasmic transporter activity [GO:0005487];
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822];
single-stranded RNA binding [GO:0003727]
Gene Ontology
(Cellular Component)
Complete annatation
cytosol [GO:0005829];
nuclear inclusion body [GO:0042405];
nuclear pore [GO:0005643];
nuclear speck [GO:0016607];
nucleoplasm [GO:0005654];
nucleus [GO:0005634]
Protein-protein interaction115745
Phylogenetic treeQ9UBU9
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. CD30.4824940580375440.2516122983603380.364236466305455
AZA vs. DISU0.3427275896355030.175715261178170.76025598363942
AZA vs. IL7-0.1771538009943940.356597807618750.999311006273513
AZA vs. SAHA-0.4570883016153580.0614630708423850.304467410410158
DISU vs. CD3-0.1535793214370570.7141522285848090.799703741845032
DISU vs. IL7-0.5289904663939120.03674072720272340.251072739157323
DISU vs. SAHA-0.7973372019578240.006716775921898340.07920855236223
DMSO vs. AZA0.1360329578322780.4157769947715451
DMSO vs. CD3-0.3599352006181220.3863987937256680.500825761634448
DMSO vs. DISU-0.2089308084250460.391871157546780.861487723447114
DMSO vs. IL7-0.3055907798167960.08913670564350730.555676159426118
DMSO vs. SAHA-0.598271309743950.01140394765530420.0982747106190096
HIV vs. Mock in Activation0.0610269835458480.9474196139950880.999983755607037
HIV vs. Mock in Latency-0.006926483940553540.9664425045551480.999834320637052
IL7 vs. CD3-0.6534666708290870.1282138477719150.229330405537685
SAHA vs. CD3-0.963540252009020.02562938163163620.0567260265264326
SAHA vs. IL7-0.2830746843435720.2448630190440820.487269326609966
(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
0.4676 0.01579

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 0.185929 0.204373
(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
0.986 1.086 1.061 1.013 0.971
(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
1FO1 X-ray 2.9Å A/B=102-372.
1FT8 X-ray 3.1Å A/B/C/D/E=102-372.
1GO5 NMR - A=551-619.
1JKG X-ray 1.9Å B=371-619.
1JN5 X-ray 2.8Å B=371-619.
1KOH X-ray 3.8Å A/B/C/D=96-372.
1KOO X-ray 3.8Å A/B/C/D=96-372.
1OAI X-ray 1.0Å A=561-619.
2Z5K X-ray 2.6Å B=53-82.
2Z5M X-ray 3.0Å B=53-82.
3RW6 X-ray 2.3Å A/B=96-362.
3RW7 X-ray 3.0Å A/B/C/D=96-362.
4WYK X-ray 3.4Å A/C=96-555.

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

HIV Partner Interaction Type PubMed
Rev inhibits 24753416
Pr55(Gag) regulated by 24478440
HIV-1 virus replication enhanced by expression of human gene 18854154
Pr55(Gag) upregulated by 19586903

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03008 Ribosome biogenesis in eukaryotes - Homo sapiens (human)
hsa03013 RNA transport - Homo sapiens (human)
hsa03015 mRNA surveillance pathway - Homo sapiens (human)
hsa05164 Influenza A - Homo sapiens (human)
hsa05168 Herpes simplex infection - Homo sapiens (human)