Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002336
UniProt IDO75400
Primary gene name(s)PRPF40A
Synonym gene name(s)FBP11, FLAF1, FNBP3, HIP10, HYPA
Protein namePre-mRNA-processing factor 40 homolog A
Protein functionBinds to WASL/N-WASP and suppresses its translocation from the nucleus to the cytoplasm, thereby inhibiting its cytoplasmic function, By similarity. Plays a role in the regulation of cell morphology and cytoskeletal organization. Required in the control of cell shape and migration. May play a role in cytokinesis. May be involved in pre-mRNA splicing. {ECO:0000250, ECO:0000269|PubMed:21834987}.
Subcellular locationNucleus speckle {ECO:0000250}. Nucleus matrix {ECO:0000269|PubMed:16391387}. Note=Colocalizes with AKAP8L in the nuclear matrix. {ECO:0000250}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: O75400
Gene Ontology
(Biological Process)
Complete annatation
cell cycle [GO:0007049];
cell division [GO:0051301];
cell migration [GO:0016477];
cytoskeleton organization [GO:0007010];
mRNA splicing, via spliceosome [GO:0000398];
regulation of cell shape [GO:0008360];
regulation of cytokinesis [GO:0032465]
Gene Ontology
(Molecular Function)
Complete annatation
poly(A RNA binding [GO:0044822];
RNA binding [GO:0003723]
Gene Ontology
(Cellular Component)
Complete annatation
cytoplasm [GO:0005737];
membrane [GO:0016020];
nuclear matrix [GO:0016363];
nuclear speck [GO:0016607];
nucleoplasm [GO:0005654];
U1 snRNP [GO:0005685];
U2-type prespliceosome [GO:0071004]
Protein-protein interaction120792
Phylogenetic treeO75400
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. CD31.055019445884010.001408603022791890.00490537540654328
AZA vs. DISU0.159327939600030.5285321617204940.940949166421897
AZA vs. IL70.181716628106890.3435276890827720.999311006273513
AZA vs. SAHA0.1747935523895370.4736859785590040.806263883963762
DISU vs. CD3-0.9084584285116110.01296621586493770.036044058916894
DISU vs. IL70.01380822503677670.9562393943839260.992527131917251
DISU vs. SAHA0.01551153538028260.9577114233566230.99037113087743
DMSO vs. AZA-0.1187941826263970.47715970011081
DMSO vs. CD3-1.185331873410260.0002485755124689290.00100992181643593
DMSO vs. DISU-0.2800014483026550.2513713798145640.770579067088177
DMSO vs. IL70.3077600103189440.08652028472635420.550224883237125
DMSO vs. SAHA0.2857487551657140.2255245297157010.571816989795647
HIV vs. Mock in Activation-0.1428482916364490.8185731043368230.999983755607037
HIV vs. Mock in Latency0.0502026269588870.7602991919305840.999834320637052
IL7 vs. CD3-0.8639145676583140.00749966923288470.0235701656270373
SAHA vs. CD3-0.9062884221276420.01082242452712660.027452270261538
SAHA vs. IL7-0.01148435522854330.9623906340474720.986244264374841
(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 0.235993 0.20819
(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
0.988 1.007 0.935 0.911 0.949
(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
1UZC NMR - A=381-450.
1YWI NMR - A=142-173.
1YWJ NMR - A=142-173.
1ZR7 NMR - A=146-173.
2CQN NMR - A=743-806.
2DYF NMR - A=146-173.
2KZG NMR - A=381-450.
2L5F NMR - A=133-220.
2L9V NMR - A=381-450.
2LKS NMR - A=391-439.

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

HIV Partner Interaction Type PubMed
Envelope surface glycoprotein gp120 complexes with 23125841
Gag-Pol complexes with 23125841
Pr55(Gag) complexes with 23125841
Nef complexes with 23125841

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

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