메뉴 건너뛰기




Volumn 42, Issue 6, 2014, Pages 4043-4055

Scp160p is required for translational efficiency of codon-optimized mRNAs in yeast

Author keywords

[No Author keywords available]

Indexed keywords

CODON; PROTEIN BIOSYNTHESIS; RIBOSOMES; RNA, MESSENGER; RNA, TRANSFER; RNA-BINDING PROTEINS; SACCHAROMYCES CEREVISIAE PROTEINS;

EID: 84898958237     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkt1392     Document Type: Article
Times cited : (27)

References (44)
  • 1
    • 54949148332 scopus 로고    scopus 로고
    • Diverse rna-binding proteins interact with functionally related sets of rnas, suggesting an extensive regulatory system
    • Hogan, D. J., Riordan, D. P., Gerber, A. P., Herschlag, D. and Brown, P. O. (2008) Diverse RNA-binding proteins interact with functionally related sets of RNAs, suggesting an extensive regulatory system. PLoS Biol., 6, e255.
    • (2008) PLoS Biol , vol.6
    • Hogan, D.J.1    Riordan, D.P.2    Gerber, A.P.3    Herschlag, D.4    Brown, P.O.5
  • 2
    • 60049097909 scopus 로고    scopus 로고
    • The ribonome: A dominant force in co-ordinating gene expression. Biol
    • Mansfield, K. D. and Keene, J. D. (2009) The ribonome: a dominant force in co-ordinating gene expression. Biol. Cell, 101, 169-181.
    • (2009) Cell , vol.101 , pp. 169-181
    • Mansfield, K.D.1    Keene, J.D.2
  • 3
    • 0030973538 scopus 로고    scopus 로고
    • Vigilin, a ubiquitous protein with 14 k homology domains, is the estrogen-inducible vitellogenin mrna 30-untranslated region-binding protein
    • Dodson, R. E. and Shapiro, D. J. (1997) Vigilin, a ubiquitous protein with 14 K homology domains, is the estrogen-inducible vitellogenin mRNA 30-untranslated region-binding protein. J. Biol. Chem., 272, 12249-12252.
    • (1997) J. Biol. Chem , vol.272 , pp. 12249-12252
    • Dodson, R.E.1    Shapiro, D.J.2
  • 4
    • 0030843052 scopus 로고    scopus 로고
    • Purification and nucleic-acid-binding properties of a saccharomyces cerevisiae protein involved in the control of ploidy
    • Weber, V., Wernitznig, A., Hager, G., Harata, M., Frank, P. and Wintersberger, U. (1997) Purification and nucleic-acid-binding properties of a Saccharomyces cerevisiae protein involved in the control of ploidy. Eur. J. Biochem., 249, 309-317.
    • (1997) Eur. J. Biochem , vol.249 , pp. 309-317
    • Weber, V.1    Wernitznig, A.2    Hager, G.3    Harata, M.4    Frank, P.5    Wintersberger, U.6
  • 5
    • 34047189787 scopus 로고    scopus 로고
    • Functional overlap between conserved and diverged kh domains in saccharomyces cerevisiae scp160
    • Brykailo, M. A., Corbett, A. H. and Fridovich-Keil, J. L. (2007) Functional overlap between conserved and diverged KH domains in Saccharomyces cerevisiae SCP160. Nucleic Acids Res., 35, 1108-1118.
    • (2007) Nucleic Acids Res , vol.35 , pp. 1108-1118
    • Brykailo, M.1    Corbett, A.H.2    Fridovich-Keil, J.L.3
  • 6
    • 0037388030 scopus 로고    scopus 로고
    • Scp160p associates with specific mrnas in yeast
    • Li, A.-M., Watson, A. and Fridovich-Keil, J. L. (2003) Scp160p associates with specific mRNAs in yeast. Nucleic Acids Res., 31, 1830-1837.
    • (2003) Nucleic Acids Res , vol.31 , pp. 1830-1837
    • Li, A.-M.1    Watson, A.2    Fridovich-Keil, J.L.3
  • 7
    • 0029135214 scopus 로고
    • Scp160p, a new yeast protein associated with the nuclear membrane and the endoplasmic reticulum, is necessary for maintenance of exact ploidy
    • Wintersberger, U., Kuhne, C. and Karwan, A. (1995) Scp160p, a new yeast protein associated with the nuclear membrane and the endoplasmic reticulum, is necessary for maintenance of exact ploidy. Yeast, 11, 929-944.
    • (1995) Yeast , vol.11 , pp. 929-944
    • Wintersberger, U.1    Kuhne, C.2    Karwan, A.3
  • 8
    • 0141922974 scopus 로고    scopus 로고
    • The yeast g protein alpha subunit gpa1 transmits a signal through an rna binding effector protein scp160. Mol
    • Guo, M., Aston, C., Burchett, S. A., Dyke, C., Fields, S., Rajarao, S. J. R., Uetz, P., Wang, Y., Young, K. and Dohlman, H. G. (2003) The yeast G protein alpha subunit Gpa1 transmits a signal through an RNA binding effector protein Scp160. Mol. Cell, 12, 517-524.
    • (2003) Cell , vol.12 , pp. 517-524
    • Guo, M.1    Aston, C.2    Burchett, S.3    Dyke, C.4    Fields, S.5    Rajarao, J.R.S.6    Uetz, P.7    Wang, Y.8    Young, K.9    Dohlman, H.G.10
  • 9
    • 84861702462 scopus 로고    scopus 로고
    • Scp160-dependent mrna trafficking mediates pheromone gradient sensing and chemotropism in yeast
    • Gelin-Licht, R., Paliwal, S., Conlon, P., Levchenko, A. and Gerst, J. E. (2012) Scp160-dependent mRNA trafficking mediates pheromone gradient sensing and chemotropism in yeast. Cell Rep., 1, 483-494.
    • (2012) Cell Rep , Issue.1 , pp. 483-494
    • Gelin-Licht, R.1    Paliwal, S.2    Conlon, P.3    Levchenko, A.4    Gerst, J.E.5
  • 10
    • 33745860706 scopus 로고    scopus 로고
    • The multi-kh domain protein of saccharomyces cerevisiae scp160p contributes to the regulation of telomeric silencing
    • Marsellach, F.-X., Huertas, D. and Azorín, F. (2006) The multi-KH domain protein of Saccharomyces cerevisiae Scp160p contributes to the regulation of telomeric silencing. J. Biol. Chem., 281, 18227-18235.
    • (2006) J. Biol. Chem , vol.281 , pp. 18227-18235
    • Marsellach, F.-X.1    Huertas, D.2    Azorín, F.3
  • 11
    • 67649639495 scopus 로고    scopus 로고
    • The sesa network links duplication of the yeast centrosome with the protein translation machinery
    • Sezen, B., Seedorf, M. and Schiebel, E. (2009) The SESA network links duplication of the yeast centrosome with the protein translation machinery. Genes Dev., 23, 1559-1570.
    • (2009) Genes Dev , vol.23 , pp. 1559-1570
    • Sezen, B.1    Seedorf, M.2    Schiebel, E.3
  • 12
    • 3042779648 scopus 로고    scopus 로고
    • Asc1p, a wd40-domain containing adaptor protein, is required for the interaction of the rna-binding protein scp160p with polysomes
    • Baum, S., Bittins, M., Frey, S. and Seedorf, M. (2004) Asc1p, a WD40-domain containing adaptor protein, is required for the interaction of the RNA-binding protein Scp160p with polysomes. Biochem. J., 380, 823-830.
    • (2004) Biochem. J , vol.380 , pp. 823-830
    • Baum, S.1    Bittins, M.2    Frey, S.3    Seedorf, M.4
  • 13
    • 0035844145 scopus 로고    scopus 로고
    • Scp160p, an rnabinding, polysome-associated protein, localizes to the endoplasmic reticulum of saccharomyces cerevisiae in a microtubule-dependent manner
    • Frey, S., Pool, M. and Seedorf, M. (2001) Scp160p, an RNAbinding, polysome-associated protein, localizes to the endoplasmic reticulum of Saccharomyces cerevisiae in a microtubule-dependent manner. J. Biol. Chem., 276, 15905-15912.
    • (2001) J. Biol. Chem , vol.276 , pp. 15905-15912
    • Frey, S.1    Pool, M.2    Seedorf, M.3
  • 14
    • 0032007850 scopus 로고    scopus 로고
    • Trna is entrapped in similar, but distinct, nuclear and cytoplasmic ribonucleoprotein complexes, both of which contain vigilin and elongation factor 1 alpha
    • Kruse, C., Grunweller, A., Willkomm, D. K., Pfeiffer, T., Hartmann, R. K. and Muller, P. K. (1998) tRNA is entrapped in similar, but distinct, nuclear and cytoplasmic ribonucleoprotein complexes, both of which contain vigilin and elongation factor 1 alpha. Biochem J, 329, 615-621.
    • (1998) Biochem J , vol.329 , pp. 615-621
    • Kruse, C.1    Grunweller, A.2    Willkomm, D.3    Pfeiffer, T.4    Hartmann, R.5    Muller, P.K.6
  • 15
    • 0026729831 scopus 로고
    • Regulation of translation in eukaryotic systems
    • Kozak, M. (1992) Regulation of translation in eukaryotic systems. Annu. Rev. Cell Biol., 8, 197-225.
    • (1992) Annu. Rev. Cell Biol , vol.8 , pp. 197-225
    • Kozak, M.1
  • 16
    • 78650304100 scopus 로고    scopus 로고
    • Synonymous but not the same: The causes and consequences of codon bias
    • Plotkin, J. B. and Kudla, G. (2011) Synonymous but not the same: the causes and consequences of codon bias. Nat. Rev. Genet., 12, 32-42.
    • (2011) Nat. Rev. Genet , Issue.12 , pp. 32-42
    • Plotkin, J.B.1    Kudla, G.2
  • 18
    • 0023650543 scopus 로고
    • The codon adaptation index-A measure of directional synonymous codon usage bias, and its potential applications
    • Sharp, P. M. and Li, W.-H. (1987) The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res., 15, 1281-1295.
    • (1987) Nucleic Acids Res , vol.15 , pp. 1281-1295
    • Sharp, P.M.1    Li, W.-H.2
  • 19
    • 17444449538 scopus 로고    scopus 로고
    • Transfer rna gene redundancy and translational selection in saccharomyces cerevisiae
    • Percudani, R. R., Pavesi, A. A. and Ottonello, S. S. (1997) Transfer RNA gene redundancy and translational selection in Saccharomyces cerevisiae. J. Mol. Biol., 268, 322-330.
    • (1997) J. Mol. Biol , vol.268 , pp. 322-330
    • Percudani, R.1    Pavesi, A.A.2    Ottonello, S.S.3
  • 20
    • 84875465945 scopus 로고    scopus 로고
    • Positively charged residues are the major determinants of ribosomal velocity
    • Charneski, C. A. and Hurst, L. D. (2013) Positively charged residues are the major determinants of ribosomal velocity. PLoS Biol., 11, e1001508.
    • (2013) PLoS Biol , vol.11
    • Charneski, C.A.1    Hurst, L.D.2
  • 21
    • 77950792003 scopus 로고    scopus 로고
    • Diffusion, crowding & protein stability in a dynamic molecular model of the bacterial cytoplasm
    • McGuffee, S. R. and Elcock, A. H. (2010) Diffusion, crowding & protein stability in a dynamic molecular model of the bacterial cytoplasm. PLoS Comput. Biol., 6, e1000694.
    • (2010) PLoS Comput. Biol , vol.6
    • McGuffee, S.R.1    Elcock, A.H.2
  • 23
    • 0034675993 scopus 로고    scopus 로고
    • She2p, a novel rna-binding protein tethers ash1 mrna to the myo4p myosin motor via she3p
    • Bohl, F., Kruse, C., Frank, A., Ferring, D. and Jansen, R. P. (2000) She2p, a novel RNA-binding protein tethers ASH1 mRNA to the Myo4p myosin motor via She3p. EMBO J., 19, 5514-5524.
    • (2000) EMBO J , vol.19 , pp. 5514-5524
    • Bohl, F.1    Kruse, C.2    Frank, A.3    Ferring, D.4    Jansen, R.P.5
  • 24
    • 67649878835 scopus 로고    scopus 로고
    • Affinity purification of ribosomes to access the translatome
    • Halbeisen, R. E., Scherrer, T. and Gerber, A. P. (2009) Affinity purification of ribosomes to access the translatome. Methods, 48, 306-310.
    • (2009) Methods , vol.48 , pp. 306-310
    • Halbeisen, R.1    Scherrer, T.2    Gerber, A.P.3
  • 25
    • 0032519306 scopus 로고    scopus 로고
    • An activator/repressor dual system allows tight tetracyclineregulated gene expression in budding yeast
    • Bellí, G., Garí, E., Piedrafita, L., Aldea, M. and Herrero, E. (1998) An activator/repressor dual system allows tight tetracyclineregulated gene expression in budding yeast. Nucleic Acids Res., 26, 942-947.
    • (1998) Nucleic Acids Res , vol.26 , pp. 942-947
    • Bellí, G.1    Garí, E.2    Piedrafita, L.3    Aldea, M.4    Herrero, E.5
  • 26
    • 0029091802 scopus 로고
    • A channeled trna cycle during mammalian protein synthesis
    • Stapulionis, R. and Deutscher, M. P. (1995) A channeled tRNA cycle during mammalian protein synthesis. Proc. Natl Acad. Sci. USA, 92, 7158-7161.
    • (1995) Proc. Natl Acad. Sci. USA , vol.92 , pp. 7158-7161
    • Stapulionis, R.1    Deutscher, M.P.2
  • 27
    • 0037470057 scopus 로고    scopus 로고
    • Functional interactions between yeast translation eukaryotic elongation factor (eef) 1a and eef3
    • Anand, M., Chakraburtty, K., Marton, M. J., Hinnebusch, A. G. and Kinzy, T. G. (2003) Functional interactions between yeast translation eukaryotic elongation factor (eEF) 1A and eEF3. J. Biol. Chem., 278, 6985-6991.
    • (2003) J. Biol. Chem , vol.278 , pp. 6985-6991
    • Anand, M.1    Chakraburtty, K.2    Marton, M.3    Hinnebusch, A.G.4    Kinzy, T.G.5
  • 28
    • 0025876244 scopus 로고
    • Channeling of aminoacyl-trna for protein synthesis in vivo
    • Negrutskii, B. S. and Deutscher, M. P. (1991) Channeling of aminoacyl-tRNA for protein synthesis in vivo. Proc. Natl Acad. Sci. USA, 88, 4991-4995.
    • (1991) Proc. Natl Acad. Sci. USA , vol.88 , pp. 4991-4995
    • Negrutskii, B.S.1    Deutscher, M.P.2
  • 29
    • 0034073452 scopus 로고    scopus 로고
    • Darwin v. 2.0: An interpreted computer language for the biosciences
    • Gonnet, G. H., Hallett, M. T., Korostensky, C. and Bernardin, L. (2000) Darwin v. 2.0: an interpreted computer language for the biosciences. Bioinformatics, 16, 101-103.
    • (2000) Bioinformatics , Issue.16 , pp. 101-103
    • Gonnet, G.1    Hallett, M.2    Korostensky, C.3    Bernardin, L.4
  • 31
    • 33750258647 scopus 로고    scopus 로고
    • Measures of codon bias in yeast, the trna pairing index and possible dna repair mechanisms. Algorithms in bioinformatics, lecture notes in computer
    • Springer, Berlin, Heidelberg
    • Friberg, M. T., Gonnet, P., Barral, Y., Schraudolph, N. N. and Gonnet, G. H. (2006) Measures of Codon Bias in Yeast, the tRNA Pairing Index and Possible DNA Repair Mechanisms. Algorithms in Bioinformatics, Lecture Notes in Computer Science, Vol. 4175. Springer, Berlin, Heidelberg, pp. 1-11.
    • (2006) Science , vol.4175 , pp. 1-11
    • Friberg, M.1    Gonnet, P.2    Barral, Y.3    Schraudolph, N.N.4    Gonnet, G.H.5
  • 32
    • 0035912793 scopus 로고    scopus 로고
    • Ribonucleoprotein infrastructure regulating the flow of genetic information between the genome and the proteome
    • Keene, J. D. (2001) Ribonucleoprotein infrastructure regulating the flow of genetic information between the genome and the proteome. Proc. Natl Acad. Sci. USA, 98, 7018-7024.
    • (2001) Proc. Natl Acad. Sci. USA , vol.98 , pp. 7018-7024
    • Keene, J.D.1
  • 33
    • 80053537984 scopus 로고    scopus 로고
    • Rack1, a multifaceted scaffolding protein: Structure and function
    • Adams, D. R., Ron, D. and Kiely, P. A. (2011) RACK1, A multifaceted scaffolding protein: structure and function. Cell Commun. Signal., 9, 22.
    • (2011) Cell Commun. Signal , Issue.9 , pp. 22
    • Adams, D.1    Ron, D.2    Kiely, P.A.3
  • 35
    • 0141482078 scopus 로고    scopus 로고
    • Widespread cytoplasmic mrna transport in yeast: Identification of 22 bud-localized transcripts using dna microarray analysis
    • Shepard, K. A., Gerber, A. P., Jambhekar, A., Takizawa, P. A., Brown, P. O., Herschlag, D., DeRisi, J. L. and Vale, R. D. (2003) Widespread cytoplasmic mRNA transport in yeast: identification of 22 bud-localized transcripts using DNA microarray analysis. Proc. Natl Acad. Sci. USA, 100, 11429-11434.
    • (2003) Proc. Natl Acad. Sci. USA , vol.100 , pp. 11429-11434
    • Shepard, K.1    Gerber, A.2    Jambhekar, A.3    Takizawa, P.4    Brown, P.5    Herschlag, D.6    DeRisi, J.L.7    Vale, R.D.8
  • 36
    • 55549092781 scopus 로고    scopus 로고
    • Distinct roles for khd1p in the localization and expression of bud-localized mrnas in yeast
    • Hasegawa, Y., Irie, K. and Gerber, A. P. (2008) Distinct roles for Khd1p in the localization and expression of bud-localized mRNAs in yeast. RNA, 14, 2333-2347.
    • (2008) RNA , vol.14 , pp. 2333-2347
    • Hasegawa, Y.1    Irie, K.2    Gerber, A.P.3
  • 37
    • 0030977796 scopus 로고    scopus 로고
    • Identification of a mannoprotein present in the inner layer of the cell wall of saccharomyces cerevisiae
    • Moukadiri, I., Armero, J., Abad, A., Sentandreu, R. and Zueco, J. (1997) Identification of a mannoprotein present in the inner layer of the cell wall of Saccharomyces cerevisiae. J. Bacteriol., 179, 2154-2162.
    • (1997) J. Bacteriol , vol.179 , pp. 2154-2162
    • Moukadiri, I.1    Armero, J.2    Abad, A.3    Sentandreu, R.4    Zueco, J.5
  • 38
    • 0025785918 scopus 로고
    • The aga1 product is involved in cell surface attachment of the saccharomyces cerevisiae cell adhesion glycoprotein aagglutinin
    • Roy, A., Lu, C. F., Marykwas, D. L., Lipke, P. N. and Kurjan, J. (1991) The AGA1 product is involved in cell surface attachment of the Saccharomyces cerevisiae cell adhesion glycoprotein aagglutinin. Mol. Cell. Biol., 11, 4196-4206.
    • (1991) Mol. Cell. Biol , vol.11 , pp. 4196-4206
    • Roy, A.1    Lu, C.2    Marykwas, D.3    Lipke, P.N.4    Kurjan, J.5
  • 39
    • 20144363378 scopus 로고    scopus 로고
    • Comprehensive proteomic analysis of saccharomyces cerevisiae cell walls: Identification of proteins covalently attached via glycosylphosphatidylinositol remnants or mild alkali-sensitive linkages
    • Yin, Q. Y., de Groot, P. W. J., Dekker, H. L., de Jong, L., Klis, F. M. and de Koster, C. G. (2005) Comprehensive proteomic analysis of Saccharomyces cerevisiae cell walls: identification of proteins covalently attached via glycosylphosphatidylinositol remnants or mild alkali-sensitive linkages. J. Biol. Chem., 280, 20894-20901.
    • (2005) J. Biol. Chem , vol.280 , pp. 20894-20901
    • Yin, Q.1    De Groot, P.W.J.2    Dekker, H.L.3    De Jong, L.4    Klis, F.M.5    De Koster, C.G.6
  • 40
    • 0036275984 scopus 로고    scopus 로고
    • A third osmosensing branch in saccharomyces cerevisiae requires the msb2 protein and functions in parallel with the sho1 branch
    • O'Rourke, S. M. and Herskowitz, I. (2002) A third osmosensing branch in Saccharomyces cerevisiae requires the Msb2 protein and functions in parallel with the Sho1 branch. Mol. Cell. Biol., 22, 4739-4749.
    • (2002) Mol. Cell. Biol , vol.22 , pp. 4739-4749
    • O'Rourke, S.M.1    Herskowitz, I.2
  • 41
    • 1442348239 scopus 로고    scopus 로고
    • A sensitive predictor for potential gpi lipid modification sites in fungal protein sequences and its application to genomewide studies for aspergillus nidulans, candida albicans, neurospora crassa, saccharomyces cerevisiae and schizosaccharomyces pombe
    • Eisenhaber, B., Schneider, G., Wildpaner, M. and Eisenhaber, F. (2004) A sensitive predictor for potential GPI lipid modification sites in fungal protein sequences and its application to genomewide studies for Aspergillus nidulans, Candida albicans, Neurospora crassa, Saccharomyces cerevisiae and Schizosaccharomyces pombe. J. Mol. Biol., 337, 243-253.
    • (2004) J. Mol. Biol , vol.337 , pp. 243-253
    • Eisenhaber, B.1    Schneider, G.2    Wildpaner, M.3    Eisenhaber, F.4
  • 42
    • 84873510362 scopus 로고    scopus 로고
    • Ribosome traffic on mrnas maps to gene ontology: Genome-wide quantification of translation initiation rates and polysome size regulation
    • Ciandrini, L., Stansfield, I. and Romano, M. C. (2013) Ribosome traffic on mRNAs maps to gene ontology: genome-wide quantification of translation initiation rates and polysome size regulation. PLoS Comput. Biol., 9, e1002866.
    • (2013) PLoS Comput. Biol , vol.9
    • Ciandrini, L.1    Stansfield, I.2    Romano, M.C.3
  • 43
    • 0029847582 scopus 로고    scopus 로고
    • Evidence for a novel cytoplasmic trnaprotein complex containing the kh-multidomain protein vigilin
    • Kruse, C., Grunweller, A., Notbohm, H., Kugler, S., Purschke, W. G. and Muller, P. K. (1996) Evidence for a novel cytoplasmic tRNAprotein complex containing the KH-multidomain protein vigilin. Biochem. J., 320, 247-252.
    • (1996) Biochem. J , vol.320 , pp. 247-252
    • Kruse, C.1    Grunweller, A.2    Notbohm, H.3    Kugler, S.4    Purschke, W.G.5    Muller, P.K.6
  • 44
    • 84873570699 scopus 로고    scopus 로고
    • Evolutionary conservation of codon optimality reveals hidden signatures of cotranslational folding
    • Pechmann, S. and Frydman, J. (2012) Evolutionary conservation of codon optimality reveals hidden signatures of cotranslational folding. Nat. Struct. Mol. Biol., 20, 237-243.
    • (2012) Nat. Struct. Mol. Biol , Issue.20 , pp. 237-243
    • Pechmann, S.1    Frydman, J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.