Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0003280
UniProt IDQ9UK41
Primary gene name(s)VPS28
Synonym gene name(s)unknown
Protein nameVacuolar protein sorting-associated protein 28 homolog
Protein functionComponent of the ESCRT-I complex, a regulator of vesicular trafficking process. {ECO:0000269|PubMed:11916981}.
Subcellular locationCell membrane {ECO:0000269|PubMed:11916981}. Late endosome membrane {ECO:0000269|PubMed:11916981};
Peripheral membrane protein {ECO:0000269|PubMed:11916981}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q9UK41
Gene Ontology
(Biological Process)
Complete annatation
autophagy [GO:0006914];
endosomal transport [GO:0016197];
intracellular transport of virus [GO:0075733];
multivesicular body assembly [GO:0036258];
negative regulation of protein ubiquitination [GO:0031397];
positive regulation of protein catabolic process [GO:0045732];
positive regulation of ubiquitin-dependent endocytosis [GO:2000397];
protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway [GO:0043328];
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway [GO:0043162];
viral budding via host ESCRT complex [GO:0039702];
viral life cycle [GO:0019058]
Gene Ontology
(Molecular Function)
Complete annatation
protein complex binding [GO:0032403];
ubiquitin binding [GO:0043130]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
cytosol [GO:0005829];
early endosome [GO:0005769];
endosome [GO:0005768];
endosome membrane [GO:0010008];
ESCRT I complex [GO:0000813];
extracellular exosome [GO:0070062];
late endosome membrane [GO:0031902];
plasma membrane [GO:0005886]
Protein-protein interaction119341
Phylogenetic treeQ9UK41
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. CD3-0.6405792123709780.05153249068272590.102318232060341
AZA vs. DISU-0.09616580478823950.7038112954482460.970781006062976
AZA vs. IL7-0.1796341174407280.3507435804010730.999311006273513
AZA vs. SAHA-0.04710517597266250.8469181150690790.963550011990275
DISU vs. CD30.5320744216381780.1431436763757710.246938404404711
DISU vs. IL7-0.09308860026741030.7117370079449160.926027799955986
DISU vs. SAHA0.0517388428507540.8590955181962870.962323345728646
DMSO vs. AZA0.05812046811384030.7289526135456971
DMSO vs. CD30.6856960356606410.03298666188029920.0678885329544682
DMSO vs. DISU0.1520866555581470.533124978964170.919875593426842
DMSO vs. IL7-0.230114531717430.2012812253437650.712242609672994
DMSO vs. SAHA-0.1098539629828480.6412360224391760.884178233685345
HIV vs. Mock in Activation0.02453812211310150.9687343957249910.999983755607037
HIV vs. Mock in Latency0.05648960846509470.7324398556117760.999834320637052
IL7 vs. CD30.4663377445100120.1478411377739310.256256838738094
SAHA vs. CD30.5703757540725150.1081577784761170.185697013570378
SAHA vs. IL70.13027239566730.5928186627268930.792389239006946
(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 -0.396267 0.00282334
(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
0.996 0.852 0.774 0.785 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

not found

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

HIV Partner Interaction Type PubMed
p6 complexes with 18005716
Pr55(Gag) regulated by 15218037

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04144 Endocytosis - Homo sapiens (human)