Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002036
UniProt IDP52948
Primary gene name(s)NUP98
Synonym gene name(s)ADAR2
Protein nameNuclear pore complex protein Nup98-Nup96 [Cleaved into: Nuclear pore complex protein Nup98
Protein functionPlays a role in the nuclear pore complex, NPC assembly and/or maintenance. Nup98 and Nup96 are involved in the bidirectional transport across the NPC. May anchor NUP153 and TPR to the NPC. {ECO:0000269|PubMed:15229283}.
Subcellular locationNucleus membrane {ECO:0000269|PubMed:11839768, ECO:0000269|PubMed:12802065, ECO:0000269|PubMed:15229283, ECO:0000269|PubMed:20407419};
Peripheral membrane protein;
Nucleoplasmic side {ECO:0000269|PubMed:11839768}. Nucleus, nuclear pore complex {ECO:0000269|PubMed:11839768, ECO:0000269|PubMed:12802065, ECO:0000269|PubMed:15229283}. Note=NUP98 is localized to the nucleoplasmic side of the nuclear pore complex, NPC, at or near the nucleoplasmic basket, PubMed:11839768. Dissociates from the dissasembled NPC structure early during prophase of mitosis, PubMed:12802065. Colocalized with NUP153 and TPR to the nuclear basket of NPC, PubMed:11839768. Detected in diffuse and discrete intranuclear foci, PubMed:11839768. Remained localized to the nuclear membrane after poliovirus, PV infection. {ECO:0000269|PubMed:11839768, ECO:0000269|PubMed:12802065}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P52948
Gene Ontology
(Biological Process)
Complete annatation
DNA replication [GO:0006260];
gene silencing by RNA [GO:0031047];
intracellular transport of virus [GO:0075733];
mitotic nuclear envelope disassembly [GO:0007077];
mRNA export from nucleus [GO:0006406];
nuclear pore complex assembly [GO:0051292];
nuclear pore organization [GO:0006999];
nucleocytoplasmic transport [GO:0006913];
posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery [GO:0000973];
protein import into nucleus, docking [GO:0000059];
protein sumoylation [GO:0016925];
regulation of cellular response to heat [GO:1900034];
regulation of glucose transport [GO:0010827];
RNA export from nucleus [GO:0006405];
sister chromatid cohesion [GO:0007062];
telomere tethering at nuclear periphery [GO:0034398];
tRNA export from nucleus [GO:0006409];
viral process [GO:0016032];
viral transcription [GO:0019083]
Gene Ontology
(Molecular Function)
Complete annatation
nuclear localization sequence binding [GO:0008139];
nucleocytoplasmic transporter activity [GO:0005487];
RNA binding [GO:0003723];
structural constituent of nuclear pore [GO:0017056];
transporter activity [GO:0005215]
Gene Ontology
(Cellular Component)
Complete annatation
cytosol [GO:0005829];
nuclear envelope [GO:0005635];
nuclear inclusion body [GO:0042405];
nuclear membrane [GO:0031965];
nuclear periphery [GO:0034399];
nuclear pore [GO:0005643];
nuclear pore cytoplasmic filaments [GO:0044614];
nuclear pore nuclear basket [GO:0044615];
nuclear pore outer ring [GO:0031080];
nucleoplasm [GO:0005654]
Protein-protein interaction110982
Phylogenetic treeP52948
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. CD30.6353811288788140.05302528618128920.104853990202623
AZA vs. DISU0.2192283360574520.3859988207529060.900638308680944
AZA vs. IL70.1293546125578240.5005339909608570.999311006273513
AZA vs. SAHA-0.005482377288358510.9820640028547320.996243190432113
DISU vs. CD3-0.4289405887278840.2380868513293010.362993951343976
DISU vs. IL7-0.09893650906234630.6942071393196520.92069903252271
DISU vs. SAHA-0.2229967995820590.4451851416577760.789431675407925
DMSO vs. AZA0.04592595948018770.7836950271660411
DMSO vs. CD3-0.6013937794534310.06078083674820340.113436980378058
DMSO vs. DISU-0.1752904443871750.4721216834133810.897275884208221
DMSO vs. IL70.09076720761714420.6131845268266730.915237658574009
DMSO vs. SAHA-0.05774221085052560.8065454084868290.946169989204094
HIV vs. Mock in Activation0.1439963217553460.8170299759459620.999983755607037
HIV vs. Mock in Latency-0.006524053308862350.968437041520920.999834320637052
IL7 vs. CD3-0.4987841728290010.1212475603669780.219606401996089
SAHA vs. CD3-0.6653906986439060.06031856285260260.115648949387878
SAHA vs. IL7-0.1381115849776250.570762709188570.777610055375125
(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 -0.110362 0.542211
(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
0.995 0.909 0.885 0.86 0.882
(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
1KO6 X-ray 3.0Å A/C=695-880# B/D=881-941.
2Q5X X-ray 1.9Å A=733-887.
2Q5Y X-ray 2.3Å A/C=729-880.
3MMY X-ray 1.6Å B/D/F/H=158-213.
4OWR X-ray 3.1Å B=157-213.
5A9Q EM 23.0Å 5/E/N/W=881-1817.

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

HIV Partner Interaction Type PubMed
Rev interacts with 11238447
19149559
240510018943370
14554087
17304248
capsid binds 23523133
Rev recruits 9847314
nucleocapsid binds 23523133
Rev inhibited by 9847314
integrase cooperates with 18854154
21327100
21423673
22509482
22928108
23523133
HIV-1 virus replication enhanced by expression of human gene 18854154
19460752
23523133
Tat interacts with 19454010

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03013 RNA transport - Homo sapiens (human)
hsa05164 Influenza A - Homo sapiens (human)
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