Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0008151
UniProt IDP60896
Primary gene name(s)SHFM1
Synonym gene name(s)DSS1, SHFDG1
Protein name26S proteasome complex subunit DSS1
Protein functionSubunit of the 26S proteasome which plays a role in ubiquitin-dependent proteolysis, PubMed:15117943. Component of the TREX-2 complex, transcription and export complex 2, composed of at least ENY2, GANP, PCID2, DSS1, and either centrin CETN2 or CETN3, PubMed:22307388. The TREX-2 complex functions in docking export-competent ribonucleoprotein particles, mRNPs to the nuclear entrance of the nuclear pore complex, nuclear basket. TREX-2 participates in mRNA export and accurate chromatin positioning in the nucleus by tethering genes to the nuclear periphery. Binds and stabilizes BRCA2 and is thus involved in the control of R-loop-associated DNA damage and thus transcription-associated genomic instability. R-loop accumulation increases in DSS1-depleted cells. {ECO:0000269|PubMed:15117943, ECO:0000269|PubMed:22307388, ECO:0000269|PubMed:24896180}.
Subcellular locationunknown
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P60896
Gene Ontology
(Biological Process)
Complete annatation
double-strand break repair via homologous recombination [GO:0000724];
mRNA export from nucleus [GO:0006406];
proteasome assembly [GO:0043248];
proteolysis [GO:0006508]
Gene Ontology
(Molecular Function)
Complete annatation
unknown
Gene Ontology
(Cellular Component)
Complete annatation
proteasome complex [GO:0000502];
proteasome regulatory particle, lid subcomplex [GO:0008541]
Protein-protein interaction113692
Phylogenetic treeP60896
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. CD31.212701273713360.0002794861484548550.00119196808984481
AZA vs. DISU0.02428320361052690.9237090443657440.995042856396371
AZA vs. IL70.1841401808762040.3404096583251310.999311006273513
AZA vs. SAHA-0.1134976612532860.6427384412256940.889518845302618
DISU vs. CD3-1.200956641905460.001192240008079270.0048210147046559
DISU vs. IL70.1506729453883440.5504755680111280.853155502522371
DISU vs. SAHA-0.1366146133228460.6397398525655840.888705771880011
DMSO vs. AZA-0.2273664036966650.1784554939630061
DMSO vs. CD3-1.445954655213931.08512394888516e-056.20258841449998e-05
DMSO vs. DISU-0.2522694822675530.3025334990986160.809707530244731
DMSO vs. IL70.4179871470876330.02095661455887430.29753402944713
DMSO vs. SAHA0.1048423518993390.6576041604876880.892056912935189
HIV vs. Mock in Activation-0.09453094401465310.8792436307223170.999983755607037
HIV vs. Mock in Latency-0.07034066937243490.7284753378342370.999834320637052
IL7 vs. CD3-1.020130404848340.001773807812618930.00694818221403461
SAHA vs. CD3-1.350850671935580.000186341144643110.00083008012112671
SAHA vs. IL7-0.3008968627978670.2179818223408310.456369165273012
(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 0.00647495 0.979216
(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
202276_at 1.88 No upregulated in CD8+ cells

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
1IYJ X-ray 3.4Å A/C=1-70.
1MIU X-ray 3.1Å B=1-70.
1MJE X-ray 3.5Å B=1-70.
3T5X X-ray 2.1Å B=1-70.
5GJQ EM 4.5Å Y=1-70.
5GJR EM 3.5Å AB/Y=1-70.
5L4K EM 4.5Å Y=1-70.
5T0C EM 3.8Å Ae/Be=1-70.
5T0G EM 4.4Å e=1-70.
5T0H EM 6.8Å e=1-70.
5T0I EM 8.0Å e=1-70.
5T0J EM 8.0Å e=1-70.

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

not found

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03050 Proteasome - Homo sapiens (human)
hsa03440 Homologous recombination - Homo sapiens (human)
hsa05169 Epstein-Barr virus infection - Homo sapiens (human)
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