Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002365
UniProt IDP26599
Primary gene name(s)PTBP1
Synonym gene name(s)PTB
Protein namePolypyrimidine tract-binding protein 1
Protein functionPlays a role in pre-mRNA splicing and in the regulation of alternative splicing events. Activates exon skipping of its own pre-mRNA during muscle cell differentiation. Binds to the polypyrimidine tract of introns. May promote RNA looping when bound to two separate polypyrimidine tracts in the same pre-mRNA. May promote the binding of U2 snRNP to pre-mRNA. Cooperates with RAVER1 to modulate switching between mutually exclusive exons during maturation of the TPM1 pre-mRNA. Represses the splicing of MAPT/Tau exon 10, PubMed:15009664. In case of infection by picornaviruses, binds to the viral internal ribosome entry site, IRES and stimulates the IRES-mediated translation, PubMed:21518806. {ECO:0000269|PubMed:11003644, ECO:0000269|PubMed:15009664, ECO:0000269|PubMed:16179478, ECO:0000269|PubMed:16260624, ECO:0000269|PubMed:21518792, ECO:0000269|PubMed:21518806}.
Subcellular locationNucleus.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: P26599
Gene Ontology
(Biological Process)
Complete annatation
alternative mRNA splicing, via spliceosome [GO:0000380];
fibroblast growth factor receptor signaling pathway [GO:0008543];
gene expression [GO:0010467];
IRES-dependent viral translational initiation [GO:0075522];
mRNA processing [GO:0006397];
mRNA splicing, via spliceosome [GO:0000398];
negative regulation of mRNA splicing, via spliceosome [GO:0048025];
negative regulation of muscle cell differentiation [GO:0051148];
negative regulation of RNA splicing [GO:0033119];
regulation of alternative mRNA splicing, via spliceosome [GO:0000381];
RNA splicing [GO:0008380]
Gene Ontology
(Molecular Function)
Complete annatation
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822];
poly-pyrimidine tract binding [GO:0008187];
pre-mRNA binding [GO:0036002];
RNA binding [GO:0003723]
Gene Ontology
(Cellular Component)
Complete annatation
extracellular exosome [GO:0070062];
membrane [GO:0016020];
nucleolus [GO:0005730];
nucleoplasm [GO:0005654]
Protein-protein interaction111697
Phylogenetic treeP26599
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. CD31.354243653666544.65868871453168e-050.000245399945675271
AZA vs. DISU0.09918856970863270.6958059557437420.969258184244663
AZA vs. IL70.1252275715811780.5144615870217490.999311006273513
AZA vs. SAHA-0.3021629681384890.2158320256377690.584697623414976
DISU vs. CD3-1.267400590564320.0006042323106407730.00267809404604499
DISU vs. IL70.01647393388069840.9477854988889390.991194708338029
DISU vs. SAHA-0.3989855534605650.1710843022704380.534275076568124
DMSO vs. AZA0.06651396843325480.6904988564933371
DMSO vs. CD3-1.29983060165416.19552826445213e-050.000293785436902648
DMSO vs. DISU-0.03462056617182530.8872329009598140.987802141379617
DMSO vs. IL70.06607224160746120.7126548738456210.941731436117
DMSO vs. SAHA-0.3738895995884630.1127314492607970.399007907893253
HIV vs. Mock in Activation0.4041393217440160.5163967393237250.999983755607037
HIV vs. Mock in Latency-0.03066785802978330.8522869366616090.999834320637052
IL7 vs. CD3-1.223326387049310.0001758345139040160.000953021800818136
SAHA vs. CD3-1.679512184647683.68520959193042e-062.59868842980823e-05
SAHA vs. IL7-0.4299035861547350.07742731906779410.245300421947862
(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 0.336121 0.00913982
(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
1.052 0.994 0.891 0.859 0.942
(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
1QM9 NMR - A=335-531.
1SJQ NMR - A=55-147.
1SJR NMR - A=147-301.
2AD9 NMR - A=49-146.
2ADB NMR - A=172-298.
2ADC NMR - A=324-531.
2EVZ NMR - A=324-531.
2N3O NMR - A=41-163.
3ZZY X-ray 1.4Å A/B=156-285.
3ZZZ X-ray 1.5Å A/B=156-285.

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

HIV Partner Interaction Type PubMed
Rev interacts with 8883365
retropepsin cleaves 22944692
Tat interacts with 25496916

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
not found