Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0003102
UniProt IDP62995
Primary gene name(s)TRA2B
Synonym gene name(s)SFRS10
Protein nameTransformer-2 protein homolog beta
Protein functionSequence-specific RNA-binding protein which participates in the control of pre-mRNA splicing. Can either activate or suppress exon inclusion. Acts additively with RBMX to promote exon 7 inclusion of the survival motor neuron SMN2. Activates the splicing of MAPT/Tau exon 10. Alters pre-mRNA splicing patterns by antagonizing the effects of splicing regulators, like RBMX. Binds to the AG-rich SE2 domain in the SMN exon 7 RNA. Binds to pre-mRNA. {ECO:0000269|PubMed:12165565, ECO:0000269|PubMed:12761049, ECO:0000269|PubMed:15009664, ECO:0000269|PubMed:9546399}.
Subcellular locationNucleus {ECO:0000269|PubMed:9212162, ECO:0000269|PubMed:9546399}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P62995
Gene Ontology
(Biological Process)
Complete annatation
cerebral cortex regionalization [GO:0021796];
embryonic brain development [GO:1990403];
mRNA splicing, via spliceosome [GO:0000398];
negative regulation of mRNA splicing, via spliceosome [GO:0048025];
positive regulation of mRNA splicing, via spliceosome [GO:0048026];
regulation of alternative mRNA splicing, via spliceosome [GO:0000381];
response to reactive oxygen species [GO:0000302];
RNA splicing, via transesterification reactions [GO:0000375]
Gene Ontology
(Molecular Function)
Complete annatation
mRNA binding [GO:0003729];
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822]
Gene Ontology
(Cellular Component)
Complete annatation
nucleoplasm [GO:0005654];
nucleus [GO:0005634]
Protein-protein interaction112332
Phylogenetic treeP62995
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. CD31.373856587768523.66174227823812e-050.000199169179421166
AZA vs. DISU-0.1506798179726730.5507192824157720.946928765276725
AZA vs. IL70.2530983225472560.187195056845660.952505417553304
AZA vs. SAHA-0.09922232199230090.6836495556588320.908556848798514
DISU vs. CD3-1.53743839215373.25909727535434e-050.000212031214193748
DISU vs. IL70.394729756817340.1169979106406790.447083270699171
DISU vs. SAHA0.05279398011352460.855980299413880.9615850182806
DMSO vs. AZA0.01818294428724080.9133246143948681
DMSO vs. CD3-1.36719791580722.5986431822167e-050.000135415287236577
DMSO vs. DISU0.1670001854997370.4929877638893540.906111920065799
DMSO vs. IL70.2421633024511330.1771363147910660.688068700883369
DMSO vs. SAHA-0.1241198157399170.5978863825747890.863670559000327
HIV vs. Mock in Activation-0.03557178844410880.9543377261798850.999983755607037
HIV vs. Mock in Latency-0.1093078316960380.5065694507837510.999834320637052
IL7 vs. CD3-1.113028055304550.0006095835623646240.00278035711156132
SAHA vs. CD3-1.497777208251573.22357488883318e-050.000177102710808298
SAHA vs. IL7-0.3557686317637120.1437450186129030.357599461734481
(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) FALSE
(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 0.151813 0.5238
(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
1.024 0.954 0.933 0.881 1.012
(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
2CQC NMR - A=110-191.
2KXN NMR - B=106-200.
2RRA NMR - A=109-201.
2RRB NMR - A=111-201.

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

HIV Partner Interaction Type PubMed
Pr55(Gag) inhibited by 25970345
Vpr activated by 23255807
Tat inhibited by 25416801
Envelope surface glycoprotein gp120 inhibited by 25970345
HIV-1 virus replication regulated by expression of human gene 25970345
Envelope surface glycoprotein gp120 enhanced by 6434
HIV-1 virus replication inhibited by expression of human gene 25970345

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03040 Spliceosome - Homo sapiens (human)
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