Functional characterization of ribosomal protein L15 from Saccharomyces cerevisiae

Current Genetics

Volumn 55, Issue 2, 2009, Pages 111-125

  Simoff, Ivailo ^a,b   Moradi, Hossein ^a,b   Nygärd, Odd ^a  

^a School of Life Sciences Södertörn University   (Sweden)

^b STOCKHOLM UNIVERSITY   (Sweden)

Author keywords

Functional complementation; Mutagenesis; Nuclear localization; Promoter; Ribosomal protein L15; Yeast

Indexed keywords

FUNGAL PROTEIN; FUNGAL RNA; MESSENGER RNA; RIBOSOMAL PROTEIN L15A; RIBOSOMAL PROTEIN L15B; RIBOSOME PROTEIN; UNCLASSIFIED DRUG;

AMINO ACID SUBSTITUTION; AMINO TERMINAL SEQUENCE; ARABIDOPSIS; CARBOXY TERMINAL SEQUENCE; CELL NUCLEUS; CELLULAR DISTRIBUTION; CONTROLLED STUDY; FUNGAL GENETICS; GENE DELETION; GENE FUNCTION; GENE INACTIVATION; GENETIC REGULATION; GENETIC TRANSCRIPTION; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN TRANSPORT; REVIEW; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES POMBE; SPECIES COMPARISON; STRUCTURE ACTIVITY RELATION; YEAST CELL;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARABIDOPSIS PROTEINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTATION; PROMOTER REGIONS, GENETIC; RIBOSOMAL PROTEINS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SCHIZOSACCHAROMYCES POMBE PROTEINS; SEQUENCE ALIGNMENT;

ARABIDOPSIS THALIANA; EUKARYOTA; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES POMBE;

EID: 67349272028     PISSN: 01728083     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00294-009-0228-z     Document Type: Review

References (55)

1. Amsterdam A, Sadler KC, Lai K, Farrington S, Bronson RT, Lees JA, Hopkins N (2004) Many ribosomal protein genes are cancer genes in zebrafish. PLoS Biol 2:E139
2. Arnold RJ, Polevoda B, Reilly JP, Sherman F (1999) The action of N-terminal acetyltransferases on yeast ribosomal proteins. J Biol Chem 274:37035-37040
3. Ban N, Nissen P, Hansen J, Moore PB, Steitz TA (2000) The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution. Science 289:905-920
4. Bartish G, Nygård O (2008) Importance of individual amino acids in the Switch I region in eEF2 studied by functional complementation in S. cerevisiae. Biochimie 90:736-748
5. Bartish G, Moradi H, Nygård O (2007) Amino acids Thr56 and Thr58 are not essential for elongation factor 2 function in yeast. FEBS J 274:5285-5297
6. Beck-Engeser GB, Monach PA, Mumberg D, Yang F, Wanderling S, Schreiber K, Espinosa R 3rd, Le Beau MM, Meredith SC, Schreiber H (2001) Point mutation in essential genes with loss or mutation of the second allele: relevance to the retention of tumor-specific antigens. J Exp Med 194:285-300
7. Berghofer-Hochheimer Y, Zurek C, Wolfl S, Hemmerich P, Munder T (1998) L7 protein is a coregulator of vitamin D receptor-retinoid X receptor-mediated transactivation. J Cell Biochem 69:1-12
8. Betts MJ, Russell RB (2003) Amino acid properties and consequences of substitutions. In: Barnes MR, Gray IC (eds) Bioinformatics for geneticists. Wiley, Chichester
9. Boeke JD, Trueheart J, Natsoulis G, Fink GR (1987) 5-Fluoroorotic acid as a selective agent in yeast molecular genetics. Methods Enzymol 154:164-175
10. Brons-Poulsen J, Nohr J, Larsen LK (2001) Megaprimer method for polymerase chain reaction-mediated generation of specific mutations in DNA. Methods Mol Biol 182:71-76
11. Chan YL, Lin A, McNally J, Wool IG (1987) The primary structure of rat ribosomal protein L5: A comparison of the sequence of amino acids in the proteins that interact with 5 S rRNA. J Biol Chem 262:12879-12886
12. Draptchinskaia N, Gustavsson P, Andersson B, Pettersson M, Willig TN, Dianzani I, Ball S, Tchernia G, Klar J, Matsson H, Tentler D, Mohandas N, Carlsson B, Dahl N (1999) The gene encoding ribosomal protein S19 is mutated in Diamond-Blackfan anaemia. Nat Genet 21:169-175
13. Dresios J, Panopoulos P, Synetos D (2006) Eukaryotic ribosomal proteins lacking a eubacterial counterpart: Important players in ribosomal function. Mol Microbiol 59:1651-1663
14. Ellis SR, Massey AT (2005) Diamond black fan anemia: A paradigm for a ribosome-based disease. Medical Hypotheses 66:643-648
15. Ferreira-Cerca S, Poll G, Gleizes PE, Tschochner H, Milkereit P (2005) Roles of eukaryotic ribosomal proteins in maturation and transport of pre-18S rRNA and ribosome function. Mol Cell 20:263-275
16. Giaever G, Chu AM, Ni L, Connelly C, Riles L, Veronneau S, Dow S, Lucau-Danila A, Anderson K, Andre B, Arkin AP, Astromoff A, El-Bakkoury M, Bangham R, Benito R, Brachat S, Campanaro S, Curtiss M, Davis K, Deutschbauer A, Entian KD, Flaherty P, Foury F, Garfinkel DJ, Gerstein M, Gotte D, Guldener U, Hegemann JH, Hempel S, Herman Z, Jaramillo DF, Kelly DE, Kelly SL, Kotter P, LaBonte D, Lamb DC, Lan N, Liang H, Liao H, Liu L, Luo C, Lussier M, Mao R, Menard P, Ooi SL, Revuelta JL, Roberts CJ, Rose M, Ross-Macdonald P, Scherens B, Schimmack G, Shafer B, Shoemaker DD, Sookhai-Mahadeo S, Storms RK, Strathern JN, Valle G, Voet M, Volckaert G, Wang CY, Ward TR, Wilhelmy J, Winzeler EA, Yang Y, Yen G, Youngman E, Yu K, Bussey H, Boeke JD, Snyder M, Philippsen P, Davis RW, Johnston M (2002) Functional profiling of the Saccharomyces cerevisiae genome. Nature 418:387-391
17. Goldstone SD, Lavin MF (1993) Isolation of a cDNA clone, encoding the ribosomal protein S20, downregulated during the onset of apoptosis in a human leukaemic cell line. Biochem Biophys Res Commun 196:619-623
18. Green R, Noller HF (1997) Ribosomes and translation. Annu Rev Biochem 66:679-716
19. Gregory LA, Aguissa-Toure AH, Pinaud N, Legrand P, Gleizes PE, Fribourg S (2007) Molecular basis of Diamond-Blackfan anemia: Structure and function analysis of RPS19. Nucleic Acids Res 35:5913-5921
20. Harms J, Schluenzen F, Zarivach R, Bashan A, Gat S, Agmon I, Bartels H, Franceschi F, Yonath A (2001) High-resolution structure of the large ribosomal subunit from a mesophilic eubacterium. Cell 107:679-688
21. Hedges J, West M, Johnson AW (2005) Release of the export adapter, Nmd3p, from the 60S ribosomal subunit requires Rpl10p and the cytoplasmic GTPase Lsg1p. EMBO J 24:567-579
22. Hoffman CS, Winston F (1987) A ten-minute DNA preparation from yeast efficiently releases autonomous plasmids for transformation of Escherichia coli. Gene 57:267-272
23. Huh WK, Falvo JV, Gerke LC, Carroll AS, Howson RW, Weissman JS, O'Shea EK (2003) Global analysis of protein localization in budding yeast. Nature 425:686-691
24. Klein DJ, Moore PB, Steitz TA (2004) The roles of ribosomal proteins in the structure assembly, and evolution of the large ribosomal subunit. J Mol Biol 340:141-177
25. Komili S, Farny NG, Roth FP, Silver PA (2007) Functional specificity among ribosomal proteins regulates gene expression. Cell 131:557-571
26. Lascaris RF, Mager WH, Planta RJ (1999) DNA-binding requirements of the yeast protein Rap1p as selected in silico from ribosomal protein gene promoter sequences. Bioinformatics 15:267-277
27. Maiti T, Maitra U (1997) Characterization of translation initiation factor 5 (eIF5) from Saccharomyces cerevisiae: Functional homology with mammalian eIF5 and the effect of depletion of eIF5 on protein synthesis in vivo and in vitro. J Biol Chem 272:18333-18340
28. Martin DE, Soulard A, Hall MN (2004) TOR regulates ribosomal protein gene expression via PKA and the Forkhead transcription factor FHL1. Cell 119:969-979
29. Meskauskas A, Petrov AN, Dinman JD (2005) Identification of functionally important amino acids of ribosomal protein L3 by saturation mutagenesis. Mol Cell Biol 25:10863-10874
30. Meskauskas A, Russ JR, Dinman JD (2008) Structure/function analysis of yeast ribosomal protein L2. Nucleic Acids Res 36:1826-1835
31. Moradi H, Simoff I, Bartish G, Nygård O (2008) Functional features of the C-terminal region of yeast ribosomal protein L5. Mol Genet Genomics 280:337-350
32. Naora H, Takai I, Adachi M, Naora H (1998) Altered cellular responses by varying expression of a ribosomal protein gene: Sequential coordination of enhancement and suppression of ribosomal protein S3a gene expression induces apoptosis. J Cell Biol 141:741-753
33. Neumann F, Krawinkel U (1997) Constitutive expression of human ribosomal protein L7 arrests the cell cycle in G1 and induces apoptosis in Jurkat T-lymphoma cells. Exp Cell Res 230:252-261
34. Ortiz PA, Kinzy TG (2005) Dominant-negative mutant phenotypes and the regulation of translation elongation factor 2 levels in yeast. Nucleic Acids Res 33:5740-5748
35. Otaka E, Higo K, Osawa S (1982) Isolation of seventeen proteins and amino-terminal amino acid sequences of eight proteins from cytoplasmic ribosomes of yeast. Biochemistry 21:4545-4550
36. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: A laboratory manual. Cold Spring Harbor Laboratory Press, New York
37. Santos C, Rodriguez-Gabriel MA, Remacha M, Ballesta JP (2004) Ribosomal P0 protein domain involved in selectivity of antifungal sordarin derivatives. Antimicrob Agents Chemother 48:2930-2936
38. Schawalder SB, Kabani M, Howald I, Choudhury U, Werner M, Shore D (2004) Growth-regulated recruitment of the essential yeast ribosomal protein gene activator Ifh1. Nature 432:1058-1061
39. Semrad K, Green R, Schroeder R (2004) RNA chaperone activity of large ribosomal subunit proteins from Escherichia coli. RNA 10:1855-1860
40. Sinha N, Nussinov R (2001) Point mutations and sequence variability in proteins: Redistributions of preexisting populations. Proc Natl Acad Sci USA 98:3139-3144
41. Soni R, Carmichael JP, Murray JA (1993) Parameters affecting lithium acetate-mediated transformation of Saccharomyces cerevisiae and development of a rapid and simplified procedure. Curr Genet 24:455-459
42. Spahn CM, Gomez-Lorenzo MG, Grassucci RA, Jorgensen R, Andersen GR, Beckmann R, Penczek PA, Ballesta JP, Frank J (2004) Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation. EMBO J 23:1008-1019
43. Steitz TA, Moore PB (2003) RNA, the first macromolecular catalyst: The ribosome is a ribozyme. Trends Biochem Sci 28:411-418
44. Takakura H, Tsunasawa S, Miyagi M, Warner JR (1992) NH2-terminal acetylation of ribosomal proteins of Saccharomyces cerevisiae. J Biol Chem 267:5442-5445
45. Tom M, Waterman MR, Bocking D, Dauphin-Villemant C (1999) Cloning and characterization of the L15 ribosomal protein gene homologue from the crayfish Orconectes limosus. Biochem Biophys Res Commun 256:313-316
46. Uechi T, Tanaka T, Kenmochi N (2001) A complete map of the human ribosomal protein genes: Assignment of 80 genes to the cytogenetic map and implications for human disorders. Genomics 72:223-230
47. Wade JT, Hall DB, Struhl K (2004) The transcription factor Ifh1 is a key regulator of yeast ribosomal protein genes. Nature 432:1054-1058
48. Wagner M, Price G, Rothstein R (2006) The absence of Top3 reveals an interaction between the Sgs1 and Pif1 DNA helicases in Saccharomyces cerevisiae. Genetics 174:555-573
49. Wang Q, Yang C, Zhou J, Wang X, Wu M, Liu Z (2001) Cloning and characterization of full-length human ribosomal protein L15 cDNA, which was overexpressed in esophageal cancer. Gene 263:205-209
50. Wang H, Zhao LN, Li KZ, Ling R, Li XJ, Wang L (2006) Overexpression of ribosomal protein L15 is associated with cell proliferation in gastric cancer. BMC Cancer 6:91
51. Wilson DN, Nierhaus KH (2005) Ribosomal proteins in the spotlight. Crit Rev Biochem Mol Biol 40:243-267
52. Yamamoto A, Mizukami Y, Sakurai H (2005) Identification of a novel class of target genes and a novel type of binding sequence of heat shock transcription factor in Saccharomyces cerevisiae. J Biol Chem 280:11911-11919
53. Zeng Q, Wood AJ (2000) A cDNA encoding ribosomal protein RPL15 from the desiccation-tolerant bryophyte Tortula ruralis: mRNA transcripts are stably maintained in desiccated and rehydrated gametophytes. Biosci Biotechnol Biochem 64:2221-2224
54. Zengel JM, Jerauld A, Walker A, Wahl MC, Lindahl L (2003) The extended loops of ribosomal proteins L4 and L22 are not required for ribosome assembly or L4-mediated autogenous control. RNA 9:1188-1197
55. Zhang W, Hawse J, Huang Q, Sheets N, Miller KM, Horwitz J, Kantorow M (2002) Decreased expression of ribosomal proteins in human age-related cataract. Invest Ophthalmol Vis Sci 43:198-204