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Gene Review

PRP2  -  DEAH-box RNA-dependent ATPase PRP2

Saccharomyces cerevisiae S288c

Synonyms: N2048, Pre-mRNA-processing protein 2, Pre-mRNA-splicing factor ATP-dependent RNA helicase-like protein PRP2, RNA2, YNR011C
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Disease relevance of PRP2

  • The 5' attenuator and DED1 dependence of RNA2 suggest that, despite its divided genome, BMV regulates polymerase translation relative to other replication factors, just as many single-component RNA viruses use translational read-through and frameshift mechanisms to down-regulate polymerase [1].
  • The capsid protein that coinfiltrated with constructs expressing RNA1 and RNA2 suppressed minus-strand levels but increased plus-strand RNA accumulation [2].
  • Brome mosaic virus Protein 1a recruits viral RNA2 to RNA replication through a 5' proximal RNA2 signal [3].
  • Full-length cDNA clones corresponding to the RNA1 and RNA2 of the Polish isolate MJ of Tomato black ring virus (TBRV, genus Nepovirus) were obtained using a direct recombination strategy in yeast, and their complete nucleotide sequences were established [4].

High impact information on PRP2

  • The yeast rna mutations (rna2-rna11) are a set of temperature-sensitive mutations that result in the accumulation of intron-containing mRNA precursors at the restrictive temperature [5].
  • This observation and the kinetics with which the concentration of the various rp 51 transcripts change after a temperature shift suggest that the effect of rna2 may be at the level of processing of rp mRNA [6].
  • Similarity of 51% in the amino-terminal third of the protein was found to two yeast splicing factors, PRP2 and PRP16, and to Drosophila Maleless, which is required for dosage compensation [7].
  • Additional results indicate that at least two extrinsic factors, as well as the RNA2 gene product, are required for complementation of the rna2 delta spliceosome [8].
  • The assembly process can be blocked at complex A1 by addition of 5 mM EDTA or by carrying out the assembly process in heat-inactivated rna2 extracts [9].

Chemical compound and disease context of PRP2

  • This paper describes the sequence of 257 nucleotides from the 3' end of RNA 2 of barley stripe mosaic virus ( BSMV , strain Argentina Mild) including an internal oligo (A) tract localized at a distance of 236 nucleotides from the 3' end, and the 3' terminal tRNA-like structure accepting tyrosine [10].

Biological context of PRP2

  • Physical and genetic mapping data indicate that CSE1 is linked to HAP2 on the left arm of chromosome VII and CSE2 is adjacent to PRP2 on chromosome XIV [11].
  • The yeast sequences on these plasmids have been shown by Southern transfer hybridization and genetic mapping to be derived from the RNA2, RNA3, and RNA11 genomic loci [12].
  • Temperature-sensitive mutations in the genes RNA2 through RNA11 cause accumulation of intervening sequence containing precursor mRNAs in Saccharomyces cerevisiae [12].
  • Overexpression of the C-terminal domain of Prp2 exacerbates the temperature-sensitive phenotype of a prp2(Ts) strain, suggesting that the C-domain interferes with the activity of the Prp2(Ts) protein [13].
  • Prp2 binds to the spliceosome in the absence of ATP and is released following ATP hydrolysis [13].

Anatomical context of PRP2

  • The hermaphrodite sperm/oocyte switch requires the Caenorhabditis elegans homologs of PRP2 and PRP22 [14].
  • Mutations in an 11-mer near the C-terminal end of Prp2 eliminate its spliceosome binding and splicing activity [15].
  • In mutants temperature sensitive for ribosome synthesis, e.g., rna2, there was no recovery in the synthesis of most ribosomal proteins, suggesting that the product of rna2 is essential for the production of these proteins under all vegetative conditions [16].

Associations of PRP2 with chemical compounds

  • First, a genome-wide yeast two-hybrid screen using Prp2 as bait identified Spp2, which contained a motif with glycine residues found in a number of RNA binding proteins [15].
  • To test whether mutations outside of the H domain could confer a dominant negative phenotype, we mutagenized a GAL1-PRP2 construct and screened for mutants unable to grow on galactose-containing media [17].
  • The crosslink to lariat intermediate appears when the mutant spliceosomes are complemented with functional Prp2 protein added exogenously [18].

Regulatory relationships of PRP2

  • A region of the yeast genome (SRN2) is described that suppresses temperature-sensitive rna2 mutations when it is present on either medium or high-copy number plasmids [19].
  • In addition, we found that NoV RNA1 could support limited replication of a deletion derivative of the heterologous FHV RNA2 that expressed the yeast HIS3 selectable marker, resulting in formation of HIS+ colonies [20].

Other interactions of PRP2

  • The Saccharomyces cerevisiae genes PRP2, PRP16, and PRP22 encode pre-mRNA splicing factors that belong to the highly conserved "DEAH" family of putative RNA helicases [21].
  • Two of the genes identified in this screen were PRP2, which encodes a known pre-mRNA splicing factor, and RSE1, a novel gene that we show to be important for pre-mRNA splicing [22].
  • The study identifies a potential mechanism for Prp2 specificity mediated through a unique interaction with Spp2 and elucidates a role for a helicase-associated protein in the binding of a DEXD/H-box protein to the spliceosome [15].
  • The suppressor was selected for its ability to alleviate simultaneously the temperature-sensitive growth phenotypes of rna2 and rna6 [23].
  • PRP8 protein could be UV-crosslinked to pre-mRNA in PRP2-depleted spliceosomes stalled before initiation of the splicing reaction [24].

Analytical, diagnostic and therapeutic context of PRP2

  • Immunoprecipitation with anti-PRP2 antibodies confirmed that dominant negative PRP2 protein competed with its wild-type counterpart for interaction with spliceosomes, with which the mutant protein remained associated [25].
  • Northern blots demonstrate that although the concentrations of ribosomal protein mRNAs are diminished significantly in a strain containing the ts mutation rna2, transcripts from genes in these flanking segments are relatively unaffected [26].


  1. A mutant allele of essential, general translation initiation factor DED1 selectively inhibits translation of a viral mRNA. Noueiry, A.O., Chen, J., Ahlquist, P. Proc. Natl. Acad. Sci. U.S.A. (2000) [Pubmed]
  2. Interaction between Brome mosaic virus proteins and RNAs: effects on RNA replication, protein expression, and RNA stability. Gopinath, K., Dragnea, B., Kao, C. J. Virol. (2005) [Pubmed]
  3. Brome mosaic virus Protein 1a recruits viral RNA2 to RNA replication through a 5' proximal RNA2 signal. Chen, J., Noueiry, A., Ahlquist, P. J. Virol. (2001) [Pubmed]
  4. Cloning and sequencing of full-length cDNAs of RNA1 and RNA2 of a Tomato black ring virus isolate from Poland. Jończyk, M., Le Gall, O., Pałucha, A., Borodynko, N., Pospieszny, H. Arch. Virol. (2004) [Pubmed]
  5. The yeast RNA gene products are essential for mRNA splicing in vitro. Lustig, A.J., Lin, R.J., Abelson, J. Cell (1986) [Pubmed]
  6. The effect of temperature-sensitive RNA mutants on the transcription products from cloned ribosomal protein genes of yeast. Rosbash, M., Harris, P.K., Woolford, J.L., Teem, J.L. Cell (1981) [Pubmed]
  7. Homeless is required for RNA localization in Drosophila oogenesis and encodes a new member of the DE-H family of RNA-dependent ATPases. Gillespie, D.E., Berg, C.A. Genes Dev. (1995) [Pubmed]
  8. Splicing of yeast nuclear pre-mRNA in vitro requires a functional 40S spliceosome and several extrinsic factors. Lin, R.J., Lustig, A.J., Abelson, J. Genes Dev. (1987) [Pubmed]
  9. Spliceosome assembly in yeast. Cheng, S.C., Abelson, J. Genes Dev. (1987) [Pubmed]
  10. Nucleotide sequence of the 3'-terminal tRNA-like structure in barley stripe mosaic virus genome. Kozlov YuV, n.u.l.l., Rupasov, V.V., Adyshev, D.M., Belgelarskaya, S.N., Agranovsky, A.A., Mankin, A.S., Morozov SYu, n.u.l.l., Dolja, V.V., Atabekov, J.G. Nucleic Acids Res. (1984) [Pubmed]
  11. CSE1 and CSE2, two new genes required for accurate mitotic chromosome segregation in Saccharomyces cerevisiae. Xiao, Z., McGrew, J.T., Schroeder, A.J., Fitzgerald-Hayes, M. Mol. Cell. Biol. (1993) [Pubmed]
  12. Isolation and characterization of the RNA2, RNA3, and RNA11 genes of Saccharomyces cerevisiae. Last, R.L., Stavenhagen, J.B., Woolford, J.L. Mol. Cell. Biol. (1984) [Pubmed]
  13. Definition of a spliceosome interaction domain in yeast Prp2 ATPase. Edwalds-Gilbert, G., Kim, D.H., Silverman, E., Lin, R.J. RNA (2004) [Pubmed]
  14. The hermaphrodite sperm/oocyte switch requires the Caenorhabditis elegans homologs of PRP2 and PRP22. Puoti, A., Kimble, J. Proc. Natl. Acad. Sci. U.S.A. (2000) [Pubmed]
  15. Interaction between a G-patch protein and a spliceosomal DEXD/H-box ATPase that is critical for splicing. Silverman, E.J., Maeda, A., Wei, J., Smith, P., Beggs, J.D., Lin, R.J. Mol. Cell. Biol. (2004) [Pubmed]
  16. Hierarchy of elements regulating synthesis of ribosomal proteins in Saccharomyces cerevisiae. Kief, D.R., Warner, J.R. Mol. Cell. Biol. (1981) [Pubmed]
  17. Dominant negative mutants of the yeast splicing factor Prp2 map to a putative cleft region in the helicase domain of DExD/H-box proteins. Edwalds-Gilbert, G., Kim, D.H., Kim, S.H., Tseng, Y.H., Yu, Y., Lin, R.J. RNA (2000) [Pubmed]
  18. Site-specific crosslinks of yeast U6 snRNA to the pre-mRNA near the 5' splice site. Kim, C.H., Abelson, J. RNA (1996) [Pubmed]
  19. Evidence for related functions of the RNA genes of Saccharomyces cerevisiae. Last, R.L., Maddock, J.R., Woolford, J.L. Genetics (1987) [Pubmed]
  20. Nodamura virus RNA replication in Saccharomyces cerevisiae: heterologous gene expression allows replication-dependent colony formation. Price, B.D., Eckerle, L.D., Ball, L.A., Johnson, K.L. J. Virol. (2005) [Pubmed]
  21. Prp43: An RNA helicase-like factor involved in spliceosome disassembly. Arenas, J.E., Abelson, J.N. Proc. Natl. Acad. Sci. U.S.A. (1997) [Pubmed]
  22. A link between secretion and pre-mRNA processing defects in Saccharomyces cerevisiae and the identification of a novel splicing gene, RSE1. Chen, E.J., Frand, A.R., Chitouras, E., Kaiser, C.A. Mol. Cell. Biol. (1998) [Pubmed]
  23. A suppressor of temperature-sensitive rna mutations that affect mRNA metabolism in Saccharomyces cerevisiae. Pearson, N.J., Thorburn, P.C., Haber, J.E. Mol. Cell. Biol. (1982) [Pubmed]
  24. Interaction of the yeast splicing factor PRP8 with substrate RNA during both steps of splicing. Teigelkamp, S., Whittaker, E., Beggs, J.D. Nucleic Acids Res. (1995) [Pubmed]
  25. A dominant negative mutation in the conserved RNA helicase motif 'SAT' causes splicing factor PRP2 to stall in spliceosomes. Plumpton, M., McGarvey, M., Beggs, J.D. EMBO J. (1994) [Pubmed]
  26. Ribosomal protein genes rp 39(10 - 78), rp 39(11 - 40), rp 51, and rp 52 are not contiguous to other ribosomal protein genes in the Saccharomyces cerevisiae genome. Woolford, J.L., Rosbash, M. Nucleic Acids Res. (1981) [Pubmed]
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