Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0003708
UniProt IDP56377
Primary gene name(s)AP1S2
Synonym gene name(s)unknown
Protein nameAP-1 complex subunit sigma-2
Protein functionSubunit of clathrin-associated adaptor protein complex 1 that plays a role in protein sorting in the late-Golgi/trans-Golgi network, TGN and/or endosomes. The AP complexes mediate both the recruitment of clathrin to membranes and the recognition of sorting signals within the cytosolic tails of transmembrane cargo molecules.
Subcellular locationGolgi apparatus. Cytoplasmic vesicle membrane;
Peripheral membrane protein;
Cytoplasmic side. Membrane, clathrin-coated pit. Note=Component of the coat surrounding the cytoplasmic face of coated vesicles located at the Golgi complex.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P56377
Gene Ontology
(Biological Process)
Complete annatation
antigen processing and presentation of exogenous peptide antigen via MHC class II [GO:0019886];
intracellular protein transport [GO:0006886];
regulation of defense response to virus by virus [GO:0050690];
vesicle-mediated transport [GO:0016192]
Gene Ontology
(Molecular Function)
Complete annatation
protein transporter activity [GO:0008565]
Gene Ontology
(Cellular Component)
Complete annatation
AP-type membrane coat adaptor complex [GO:0030119];
clathrin-coated endocytic vesicle membrane [GO:0030669];
coated pit [GO:0005905];
cytoplasmic vesicle membrane [GO:0030659];
cytosol [GO:0005829];
Golgi apparatus [GO:0005794];
Golgi membrane [GO:0000139];
intracellular membrane-bounded organelle [GO:0043231];
lysosomal membrane [GO:0005765];
trans-Golgi network membrane [GO:0032588]
Protein-protein interaction114419
Phylogenetic treeP56377
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. CD3-0.09050283918462420.7939970889046780.859403325847892
AZA vs. DISU0.09132977771004160.7187031123650590.973374730783303
AZA vs. IL70.07306719613639420.7681025418317520.999311006273513
AZA vs. SAHA-0.3012260757025010.218882613543860.587044755607482
DISU vs. CD30.1698007936412180.6413251944389370.74478705554488
DISU vs. IL7-0.02669558195933310.9157432900397180.983641576562534
DISU vs. SAHA-0.3929556979299690.1787613561831440.544366392417744
DMSO vs. AZA-0.160737396777030.4027756398846091
DMSO vs. CD3-0.08269543139433060.7980255650673990.857691027876177
DMSO vs. DISU-0.2543184016674780.2988004454520540.807887568985919
DMSO vs. IL70.2411064568315050.1928393652951630.701742535690539
DMSO vs. SAHA-0.1484277535958760.5305256035544690.829293439441583
HIV vs. Mock in Activation-0.4149156480328470.5494549938127470.999983755607037
HIV vs. Mock in Latency-0.1020694616366560.5389571097307650.999834320637052
IL7 vs. CD30.174143512627980.6180027709150550.732017098746803
SAHA vs. CD3-0.2365566842061020.5069582496820620.61572056920605
SAHA vs. IL7-0.3793386516979750.1208462936124280.322071610663674
(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 -0.277179 0.0420111
(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
0.983 0.994 1.091 1.24 1.16
(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
Nef interacts with 9736718
Nef binds 12486136
Nef inhibits 23678182
Envelope transmembrane glycoprotein gp41 interacts with 11222723
Nef stabilizes 16253302
Nef activates 18336259

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa04142 Lysosome - Homo sapiens (human)