Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0001334
UniProt IDP30511
Primary gene name(s)HLA-F
Synonym gene name(s)HLA-5.4, HLAF
Protein nameHLA class I histocompatibility antigen, alpha chain F
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: P30511
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];
interferon-gamma-mediated signaling pathway [GO:0060333];
regulation of immune response [GO:0050776];
type I interferon signaling pathway [GO:0060337]
Gene Ontology
(Molecular Function)
Complete annatation
peptide antigen binding [GO:0042605];
receptor binding [GO:0005102];
TAP1 binding [GO:0046978];
TAP2 binding [GO:0046979]
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];
Golgi membrane [GO:0000139];
integral component of lumenal side of endoplasmic reticulum membrane [GO:0071556];
membrane [GO:0016020];
MHC class I protein complex [GO:0042612];
phagocytic vesicle membrane [GO:0030670];
plasma membrane [GO:0005886]
Protein-protein interaction109379
Phylogenetic treeP30511
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. CD30.2123183129653950.5182093490014790.633759437532481
AZA vs. DISU-1.013390737348327.51450210008109e-050.0133263064301909
AZA vs. IL7-0.2886073249569860.1332601177518950.898662602392564
AZA vs. SAHA0.1558582641524250.5223771200496890.834193274810428
DISU vs. CD3-1.236527612286830.0007641961309631240.0032763061655683
DISU vs. IL70.7156563035427840.004860236596039070.0742678628319935
DISU vs. SAHA1.170365628351557.68710478588064e-050.00315673995171681
DMSO vs. AZA0.0558651568401790.738381378574621
DMSO vs. CD3-0.1735130111782070.5892185631822390.686775833991522
DMSO vs. DISU1.065845332663931.64189981207707e-050.00358600437217413
DMSO vs. IL7-0.3363426571479140.06137378485503770.475682395608586
DMSO vs. SAHA0.09509566800165390.6862163888490370.902519172383615
HIV vs. Mock in Activation-0.3305029544735860.5953666616000810.999983755607037
HIV vs. Mock in Latency-0.2340579776034630.1551864488190560.999834320637052
IL7 vs. CD3-0.4931807343870760.1278719122731890.228897684796865
SAHA vs. CD3-0.08114696666675780.8190905638905880.872037781549358
SAHA vs. IL70.4406055350867550.07056915241376490.231456397280284
(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) 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 -0.14258 0.37531
(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
unknown unknown unknown unknown unknown
(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

not found

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

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)
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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