Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0005209
UniProt IDP30443
Primary gene name(s)HLA-A
Synonym gene name(s)HLAA
Protein nameHLA class I histocompatibility antigen, A-1 alpha chain
Protein functionInvolved in the presentation of foreign antigens to the immune system.
Subcellular locationMembrane;
Single-pass type I membrane protein.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P30443
Gene Ontology
(Biological Process)
Complete annatation
antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent [GO:0002479];
antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-independent [GO:0002480];
antigen processing and presentation of peptide antigen via MHC class I [GO:0002474];
detection of bacterium [GO:0016045];
immune response [GO:0006955];
interferon-gamma-mediated signaling pathway [GO:0060333];
positive regulation of T cell mediated cytotoxicity [GO:0001916];
regulation of immune response [GO:0050776];
type I interferon signaling pathway [GO:0060337];
viral process [GO:0016032]
Gene Ontology
(Molecular Function)
Complete annatation
beta-2-microglobulin binding [GO:0030881];
peptide antigen binding [GO:0042605];
TAP binding [GO:0046977]
Gene Ontology
(Cellular Component)
Complete annatation
cell surface [GO:0009986];
early endosome membrane [GO:0031901];
endoplasmic reticulum [GO:0005783];
ER to Golgi transport vesicle membrane [GO:0012507];
extracellular exosome [GO:0070062];
Golgi apparatus [GO:0005794];
Golgi membrane [GO:0000139];
integral component of lumenal side of endoplasmic reticulum membrane [GO:0071556];
integral component of plasma membrane [GO:0005887];
membrane [GO:0016020];
MHC class I protein complex [GO:0042612];
phagocytic vesicle membrane [GO:0030670];
plasma membrane [GO:0005886]
Protein-protein interaction109350
Phylogenetic treeP30443
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. CD30.09460133851502110.7725623894099110.842734336917289
AZA vs. DISU-0.2385299197806660.3458188916245710.884614300684568
AZA vs. IL7-0.2144478706678620.2626819666514160.999311006273513
AZA vs. SAHA-0.003151701442641450.9896608921792170.997804668011115
DISU vs. CD3-0.3446347456372320.341121083470.474403470082736
DISU vs. IL70.01454921306217670.9539693182974860.991935954844434
DISU vs. SAHA0.2373824432474190.4168707331556580.771430478236783
DMSO vs. AZA0.01530371148739590.9267942611986491
DMSO vs. CD3-0.09314049131698830.77108279714290.836913713181397
DMSO vs. DISU0.2511591940402660.3042322760476480.811498856723186
DMSO vs. IL7-0.2219684936961980.215067775798740.724804783238115
DMSO vs. SAHA-0.02344601889135060.9205113097246830.981674635498209
HIV vs. Mock in Activation0.03152277848709520.9595283147124550.999983755607037
HIV vs. Mock in Latency0.08634473747295570.5989590081824120.999834320637052
IL7 vs. CD3-0.3026371083021250.3468224191217490.484308809856203
SAHA vs. CD3-0.1211526260531330.7321510054329480.806000067314476
SAHA vs. IL70.2084082372462260.3907769473813310.639723252044546
(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) unknown
(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 -0.141737 0.678108
(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
1.098 0.893 0.628 0.643 1.174
(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
1W72 X-ray 2.1Å A/D=25-298.
3BO8 X-ray 1.8Å A=25-298.
4NQV X-ray 2.3Å A/C/E/G/I/K=25-298.
4NQX X-ray 2.0Å A/C/E/G/I/K=25-308.
5BRZ X-ray 2.6Å A=25-298.
5BS0 X-ray 2.4Å A=25-298.

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

HIV Partner Interaction Type PubMed
Envelope surface glycoprotein gp120 interacts with 7539755
9263011
12427289
Nef inhibits 11289809
12584329
20622010
23170180
23202450
23678182
2591579815569716
20622010
2367818215596859
23170180
23202450
Tat upregulates 11751963
14595379
Pr55(Gag) interacts with 17878955
24942586
25165114
2578198621482733
22826228
Nef complexes with 21917951
2558501022705789
22767237
Asp inhibited by 20065064
2570111225589651
Pr55(Gag) binds 17116886
Envelope surface glycoprotein gp160; precursor binds 17116886
Nef modulates 11396948
14557639
22613796
234900519971776
12502873
15078178
17170457
18005690
18073204
Envelope surface glycoprotein gp160; precursor interacts with 1316930
10799863
20200278
Nef binds 15569716
1565368517116886
9582271
10366557
10982373
11463741
12414957
12836198
14965316
15078178
16454711
18057255
18073204
18296443
18653452
19149577
22301137
22705789
22767237
23170180
23202450
matrix interacts with 23061377
Nef downregulates 10403641
18155264
23170180
2320245010684310
15078178
18073204
22301137
22705789
2276723710707087
18005690
19149577
2062201011289809
12526811
18438604
19149577
2070258211438519
11500821
11578695
1645471111602047
12097566
1561122512482663
1288419214557639
16354571
16454711
1668455215194762
15262497
15878340
16000390
1609122316365153
16847125
17581864
20622010
2558501018005690
18296443
2558501018005690
2558501018073204
18296443
2558501020622010
2191795121543478
23170180
23202450
2558501022301137
22537596
22553319
22826228
23289738
24041011
2519365624965469
26439863
8612235
12734410
15638726
16091223
16272310
16979207
16987968
17077296
17581864
17586321
17632197
17632570
18005680
18005690
18073204
18155264
18296443
18438604
18473783
18541215
18653452
18725938
18808677
19091857
19149577
19449444
19555986
19643141
19770068
20012528
20380698
20594957
20702582
21068258
21165790
21209113
21482738
21543478
21762823
21849975
21861776
21917951
21922073
21994772
22103831
22103833
22103834
22175768
22301137
22301152
22537596
22553319
22613796
22651890
22826228
22844345
22980333
23170180
23202450
23289738
23490051
23847689
23853598
23986795
24023945
24041011
24058696
24158818
24172637
24192765
24400003
24495362
24748005
24789790
24904546
24965469
25193656
25275127
25423108
25525794
258275319052838
9586638
18438604
18808677
19149577
19847956
20622010
22705789
22767237
23170180
232024509123874
Nef relocalizes 20622010
Pr55(Gag) enhances 18097038
25279819
Tat downregulates 17604883
7621073
8493575
9751712
9840288
p6 enhances 25279819
Nef interacts with 17581864
17878955
2516511418057255
1807320423061377
2488664126061722
Vpu regulated by 22503975
Nef degrades 18725938
20622010
capsid interacts with 23061377
Pr55(Gag) upregulates 21778700
Pol binds 17116886
Nef co-localizes with 15854903
Envelope surface glycoprotein gp120 complexes with 2789433
8671651
8877415
9120272
10546855
11932387
Vpr upregulates 23874603
Vpu downregulates 9104816
18672082
20012522
24400003
25275127
25620704
Asp binds 25809376
Envelope transmembrane glycoprotein gp41 upregulates 7913356
8084338
93732178084338
8084338

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04144 Endocytosis - Homo sapiens (human)
hsa04145 Phagosome - Homo sapiens (human)
hsa04514 Cell adhesion molecules (CAMs) - Homo sapiens (human)
hsa04612 Antigen processing and presentation - Homo sapiens (human)
hsa04650 Natural killer cell mediated cytotoxicity - Homo sapiens (human)
hsa04940 Type I diabetes mellitus - Homo sapiens (human)
hsa05166 HTLV-I infection - Homo sapiens (human)
hsa05168 Herpes simplex infection - Homo sapiens (human)
hsa05169 Epstein-Barr virus infection - Homo sapiens (human)
hsa05203 Viral carcinogenesis - Homo sapiens (human)
hsa05320 Autoimmune thyroid disease - Homo sapiens (human)
hsa05330 Allograft rejection - Homo sapiens (human)
hsa05332 Graft-versus-host disease - Homo sapiens (human)
hsa05416 Viral myocarditis - Homo sapiens (human)
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