Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001349
UniProt IDP09651
Primary gene name(s)HNRNPA1
Synonym gene name(s)HNRPA1
Protein nameHeterogeneous nuclear ribonucleoprotein A1
Protein functionInvolved in the packaging of pre-mRNA into hnRNP particles, transport of poly(A mRNA from the nucleus to the cytoplasm and may modulate splice site selection. May play a role in HCV RNA replication. {ECO:0000269|PubMed:17229681}.
Subcellular locationNucleus. Cytoplasm. Note=Localized in cytoplasmic mRNP granules containing untranslated mRNAs. Shuttles continuously between the nucleus and the cytoplasm along with mRNA. Component of ribonucleosomes. In the course of viral infection, colocalizes with HCV NS5B at speckles in the cytoplasm in a HCV-replication dependent manner.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P09651
Gene Ontology
(Biological Process)
Complete annatation
fibroblast growth factor receptor signaling pathway [GO:0008543];
gene expression [GO:0010467];
mRNA processing [GO:0006397];
mRNA splicing, via spliceosome [GO:0000398];
mRNA transport [GO:0051028];
negative regulation of telomere maintenance via telomerase [GO:0032211];
nuclear export [GO:0051168];
nuclear import [GO:0051170];
positive regulation of telomere maintenance via telomerase [GO:0032212];
RNA export from nucleus [GO:0006405];
viral process [GO:0016032]
Gene Ontology
(Molecular Function)
Complete annatation
G-rich strand telomeric DNA binding [GO:0098505];
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822];
RNA binding [GO:0003723];
single-stranded DNA binding [GO:0003697];
single-stranded RNA binding [GO:0003727];
telomeric repeat-containing RNA binding [GO:0061752]
Gene Ontology
(Cellular Component)
Complete annatation
catalytic step 2 spliceosome [GO:0071013];
cytoplasm [GO:0005737];
extracellular exosome [GO:0070062];
intracellular ribonucleoprotein complex [GO:0030529];
membrane [GO:0016020];
nucleoplasm [GO:0005654];
nucleus [GO:0005634];
spliceosomal complex [GO:0005681]
Protein-protein interaction109420
Phylogenetic treeP09651
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
Brass et al., Science, 2008
Smith et al., J. Immunol, 2010
      Negatively associated
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. CD30.6844029724807120.0370119442477220.0776184811050044
AZA vs. DISU-0.405682145494190.1084764230855040.653579050610225
AZA vs. IL70.1926438098747860.3149261410993580.999311006273513
AZA vs. SAHA-0.0007306079393191080.997603091971750.998999189798904
DISU vs. CD3-1.102240274919110.002597802386818060.00937946662967555
DISU vs. IL70.5889523976268860.01992277970472340.176422734801781
DISU vs. SAHA0.4061673559775290.1638398681570650.522920511011252
DMSO vs. AZA-0.0510322635034980.7593046977160441
DMSO vs. CD3-0.7456276594235080.02011584835498590.0450624915193848
DMSO vs. DISU0.3529898060451550.1476816444134450.643482765477593
DMSO vs. IL70.250670896902680.1618808614246850.66823629784962
DMSO vs. SAHA0.04279268628707770.8554986356322110.962065210953402
HIV vs. Mock in Activation0.1201957217292720.8467400014541560.999983755607037
HIV vs. Mock in Latency-0.1643605794262380.3171104402757780.999834320637052
IL7 vs. CD3-0.4840286443170210.1327061402509030.235493248410861
SAHA vs. CD3-0.7100570875965320.04514596946534780.0911874761885526
SAHA vs. IL7-0.1968790965363680.4176208965517520.661818481352094
(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
-0.5884 0.02865

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 -0.377424 0.00381747
(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
1.059 0.99 0.897 0.86 0.986
(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
1HA1 X-ray 1.7Å A=1-184.
1L3K X-ray 1.1Å A=1-196.
1PGZ X-ray 2.6Å A=2-196.
1PO6 X-ray 2.1Å A=8-190.
1U1K X-ray 2.0Å A=1-196.
1U1L X-ray 2.0Å A=1-196.
1U1M X-ray 2.0Å A=1-196.
1U1N X-ray 2.1Å A=1-196.
1U1O X-ray 2.0Å A=1-196.
1U1P X-ray 1.9Å A=1-196.
1U1Q X-ray 1.8Å A=1-196.
1U1R X-ray 1.8Å A=1-196.
1UP1 X-ray 1.9Å A=3-184.
2H4M X-ray 3.0Å C/D=309-357.
2LYV NMR - A=2-196.
2UP1 X-ray 2.1Å A=8-190.
4YOE X-ray 1.9Å A=1-196.

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

HIV Partner Interaction Type PubMed
Rev interacts with 19808671
Envelope surface glycoprotein gp120 complexes with 23125841
retropepsin cleaves 22944692
Gag-Pol complexes with 23125841
Rev stimulates 9925777
Pr55(Gag) regulated by 22187150
Pr55(Gag) complexes with 23125841
Envelope surface glycoprotein gp160; precursor regulated by 22187150
Envelope surface glycoprotein gp120 regulated by 22187150
Rev modulated by 12419255
Nef complexes with 23125841

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03040 Spliceosome - Homo sapiens (human)