Mtt1 is a Upf1-like helicase that interacts with the translation termination factors and whose overexpression can modulate termination efficiency

RNA

Volumn 6, Issue 5, 2000, Pages 730-743

  Czaplinski, Kevin ^a,d   Majlesi, Nima ^a   Banerjee, Tapo ^b   Peltz, Stuart W ^a,b,c  

^a RUTGERS ROBERT WOOD JOHNSON MEDICAL SCHOOL   (United States)

^b RUTGERS UNIVERSITY   (United States)

^c RUTGERS CANCER INSTITUTE OF NEW JERSEY   (United States)

^d EUROPEAN MOLECULAR BIOLOGY LABORATORY   (Germany)

Author keywords

Helicase; Nonsense mediated mRNA decay; Release factor; RNA; Translation termination

Indexed keywords

HELICASE; TRANSLATION TERMINATION FACTOR;

AMINO ACID SEQUENCE; ARTICLE; GENE OVEREXPRESSION; NONHUMAN; NONSENSE MUTATION; PHENOTYPE; POLYSOME; PRIORITY JOURNAL; PROTEIN SYNTHESIS; RNA DEGRADATION; SACCHAROMYCES CEREVISIAE; SEQUENCE HOMOLOGY; TRANSLATION REGULATION;

ADENOSINE TRIPHOSPHATASES; AMINO ACID SEQUENCE; ANIMALS; DNA HELICASES; EVOLUTION, MOLECULAR; GENE EXPRESSION; GENES, FUNGAL; HUMANS; MOLECULAR SEQUENCE DATA; PEPTIDE CHAIN TERMINATION, TRANSLATIONAL; PEPTIDE TERMINATION FACTORS; POLYRIBOSOMES; RNA HELICASES; RNA, FUNGAL; RNA, MESSENGER; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SUPPRESSION, GENETIC; TRANS-ACTIVATORS;

SACCHAROMYCES CEREVISIAE;

EID: 0034127550     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: 10.1017/S1355838200992392     Document Type: Article

References (91)

1. Alani E, Cao L, Kleckner N. 1987. A method for gene disruption that allows repeated use of URA3 selection in the construction of multiply deleted yeast strains. Genetics 116:541-545.
2. All-Robyn JA, Kelley-Geraghty D, Griffin E, Brown N, Liebman SW. 1990. Isolation of omnipotent suppressors in an [eta+] yeast strain. Genetics 124:505-514.
3. Altamura N, Groudinsky O, Dujardin G, Slonimski PP. 1992. NAM7 nuclear gene encodes a novel member of a family of helicases with a Z1-6n-ligand motif and is involved in mitochondrial functions in Saccharomyces cerevisiae. J Mol Biol 224:575-587.
4. Applequist SE, SeIg M, Roman C, Jack HM. 1997. Cloning and characterization of HUPF1, a human homolog of the Saccharomyces cerevisiae nonsense mRNA-reducing UPF1 protein. Nucleic Acids Res 25:814-821.
5. Barton-Davis ER, Cordier L, Shoturma Dl, Leland SE, Sweeney HL. 1999. Aminoglycoside antibiotics restore dystrophin function to skeletal muscles of mdx mice. J Clin Invest 104:375-381.
6. Bean DW, Kallam WE, Matson SW. 1993. Purification and characterization of a DNA helicase from Saccharomyces cerevisiae. J Biol Chem 268:21783-21790.
7. Bean DW, Matson SW. 1997. Identification of the gene encoding scHeh, a DNA helicase from Saccharomyces cerevisiae. Yeast 13:1465-1475.
8. Bedwell DM, Kaenjak A, Benos DJ, Bebok Z, Bubien JK, Hong J, Tousson A, Clancy JP, Sorscher EJ. 1997. Suppression of a CFTR premature stop mutation in a bronchial epithelial cell line. Nature Med 3:1280-1284.
9. Biswas EE, Chen PH, Biswas SB. 1993a. DNA helicase associated with DNA polymerase alpha: Isolation by a modified immunoaffinity chromatography. Biochemistry 32:13393-13398.
10. Biswas EE, Chen PH, Leszyk J, Biswas SB. 1995. Biochemical and genetic characterization of a replication protein A dependent DNA helicase from the yeast, Saccharomyces cerevisiae. Biochem Biophys Res Commun 206:850-856.
11. Biswas EE, Ewing CM, Biswas SB. 1993b. Characterization of the DNA-dependent ATPase and a DNA unwinding activity associated with the yeast DNA polymerase alpha complex. Biochemistry 2:3020-3026.
12. Biswas EE, Fricke WM, Chen PH, Biswas SB. 1997a. Yeast DNA helicase A: Cloning, expression, purification, and enzymatic characterization. Biochemistry 36:13277-13284.
13. Biswas SB, Chen PH, Biswas EE. 1997b. Purification and characterization of DNA polymerase-associated replication protein A-dependent yeast DNA helicase A. Biochemistry 36:13270-13276.
14. Buckingham R, Grentzmann G, Kisselev L 1997. Polypeptide chain release factors. Mol Microbiol 24:449-456.
15. Budd ME, Campbell JL. 1997. A yeast replicative helicase, Dna2, interacts with yeast FEN-1 nuclease in carrying out its essential function. Mol Cell Biol 17:2136-2142.
16. Budd ME, Choe WC, Campbell JL. 1995. DNA2 encodes a DNA helicase essential for replication of eukaryotic chromosomes. J Biol Chem 270:26766-26769.
17. Chernoff YO, Lindquist SL, Ono BI, Inge-Vechtomov SG, Leibman SW. 1995. Role of the chaperone protein Hsp 104 in propagation of the yeast prion-like factor [psi+]. Science 268:880-884.
18. Cui Y, Dinman JD, Peltz SW. 1996. mof4-1 is an allele of the UPF1/ IFS2 gene which affects both mRNA turnover and -1 ribosomal frameshifting efficiency. EMBO J 15:5726-5736.
19. Cui Y, Hagan KW, Zhang S, Peltz SW. 1995. Identification and characterization of genes that are required for the accelerated degradation of mRNAs containing a premature translational termination codon. Genes & Dev 9:423-436.
20. Czaplinski K, Ruiz-Echevarria MJ, Gonzalez CI, Peltz SW. 1999b. Should we kill the messenger? The role of the surveillance complex in translation termination and mRNA turnover. Bioessays 21:685-696.
21. Czaplinski K, Ruiz Echevarria MJ, Paushkin SV, Han X, Weng Y, Perlick HA, Dietz HC, Ter-Avanesyan MD, Peltz SW. 1998. The surveillance complex interacts with the translation release factors to enhance termination and degrade aberrant mRNAs. Genes & Dev 12:1665-1677.
22. Czaplinski K, Weng Y, Hagan KW, Peltz SW. 1995. Purification and characterization of the Upf1p: A factor involved in translation and mRNA degradation. RNA 1:610-623.
23. DeMarini DJ, Winey M, Ursic D, Webb F, Culbertson MR. 1992. SEN1, a positive effector of tRNA-splicing endonuclease in Saccharomyces cerevisiae. Mol Cell Biol 12:2154-2164.
24. Didichenko SA, Ter-Avanesyan MD, Smirnov VN. 1991. EF-1-like ribosome-bound protein of yeast Saccharomyces cerevisiae. Eur J Biochem 198:705-711.
25. _ mutation which eliminates the factor of Saccharomyces cerevisiae is the result of a missense mutation in the SUP35 gene. Genetics 137:659-670.
26. Eurwilaichitr L, Graves FM, Stansfield I, Tuite MF. 1999. The C-terminus of eRF1 defines a functionally important domain for translation termination in Saccharomyces cerevisiae. Mol Micro 32:485-496.
27. Frolova L, Le Goff X, Rasmussen HH, Cheperegin S, Drugeon G, Kress M, Arman I, Haenni AL, Cells LE, Phillippe M, Justesen J, Kisselev L. 1994. A highly conserved eukaryotic protein family possessing properties of a polypeptide chain release factor. Nature 372:701-703.
28. Frolova L, Le Goff X, Zhouravleva G, Davydova E, Phillippe M, Kisselev L. 1996. Eukaryotic polypeptide chain release factor eRF3 is an eRF1-and ribosome-dependent guanosine triphosphatase. RNA 4:334-341.
29. Frolova L, Simonsen JL, Merkulova TI, Litvinov DY, Martensen PM, Rechinsky VO, Camonis JH, Kisselev LL, Justesen J. 1998. Functional expression of eukaryotic polypeptide chain release factors 1 and 3 by means of baculovirus/insect cells and complex formation between the factors. Eur J Biochem 256:36-44.
30. +], a heritable prion-like factor of S. cerevisiae. Cell 89:811-819.
31. Glover JR, Lindquist S. 1998. Hsp104, Hsp70, and Hsp40: A novel chaperone system that rescues previously aggregated proteins. Cell 94:73-82.
32. Gorbalenya AE, Koonin EV, Dochenko AP, Blinov VM. 1988. A novel superfamily of nucleoside triphosphate-binding motif containing proteins which are probably involved in duplex unwinding in DNA and RNA replication and recombination. FEBS Lett 235:16-24.
33. Hagan KW, Ruiz-Echevarria MJ, Quan Y, Peltz SW. 1995. Characterization of cis-acting sequences and decay intermediates involved in nonsense-mediated mRNA turnover. Mol Cell Biol 15:809-823.
34. He F, Brown AH, Jacobson A. 1997. Upf1p, Nmd2p, and Upf3p are interacting components of the yeast nonsense-mediated mRNA decay pathway. Mol Cell Biol 17:1580-1594.
35. He F, Peltz SW, Donahue JL, Rosbash M, Jacobson A. 1993. Stabilization and ribosome association of unspliced pre-mRNAs in a yeast upf1-mutant. Proc Natl Acad Sci USA 90:7034-7038.
36. Hentze MW, Kulozik AE. 1999. A perfect message: RNA surveillance and nonsense-mediated decay. Cell 96:307-310.
37. Hilleren P, Parker R. 1999. mRNA surveillance in eukaryotes: Kinetic proofreading of proper translation termination as assessed by mRNP domain organization? RNA 5:711-719.
38. Hoshino SI, Imai M, Mizutani M, Kikuchi Y, Hanaoka F, Ui M, Katada T. 1998. Molecular cloning of a novel member of the eukaryotic polypeptide chain-releasing factors (eRF). J Biol Chem 273:22254-22259.
39. Hoshino SI, Miyazawa H, Enomoto T, Hanaoka F, Kikuchi Y, Kikuchi A, Ui M. 1989. A human homologue of the yeast GST1 gene codes for a GTP-binding protein and is expressed in a proliferation dependent manner in mammalian cells. EMBO J 8:3807-3814.
40. Howard M, Frizzell RA, Bedwell DM. 1996. Aminoglycoside antibiotics restore CFTR function by overcoming premature stop mutations. Nature Med 2:467-469.
41. Ito K, Ebihara K, Nakamura Y. 1998. The stretch of C-terminal acidic amino acids of translational release factor eRF1 is a primary binding site for eRF3 of fission yeast. RNA 4:958-972.
42. Jacobs Anderson JS, Parker R. 1996. RNA turnover: The helicase story unwinds. Curr Biol 6:780-782.
43. Kikuchi Y, Shimatake H, Kikuchi A. 1988. A yeast gene required for the G1-to-S transition encodes a protein containing an A-kinase target site and a GTPase domain. EMBO J 7:1175-1182.
44. Koonin EV. 1992. A new group of putative RNA helicases. Trends Biochem Sci 17:495-497.
45. Korolev S, Hsieh J, Gauss GH, Lohman TM, Waksman G. 1997. Major domain swiveling revealed by the crystal structures of complexes of E. coli Rep helicase bound to single-stranded DNA and ADP. Cell 90:635-647.
46. Korolev S, Yao N, Lohman TM, Weber PC, Waksman G. 1998. Comparisons between the structures of HCV and Rep helicases reveal structural similarities between SF1 and SF2 super-families of helicases. Protein Sci 7:605-610.
47. Leeds P, Peltz SW, Jacobson A, Culbertson MR. 1991. The product of the yeast UPF1 gene is required for rapid turnover of mRNAs containing a premature translational termination codon. Genes & Dev 5:2303-2314.
48. Leeds P, Wood JM, Lee BS, Culbertson MR. 1992. Gene products that promote mRNA turnover in Saccharomyces cerevisiae. Mol Cell Biol 12:2165-2177.
49. Le Goff X, Phillippe M, Jean-Jean O. 1997. Overexpression of human release factor 1 alone has an antisupressor effect in human cells. Mol Cell Biol 17:3164-3172.
50. Lussier M, White AM, Sheraton J, di Paolo T, Treadwell J, Southard SB, Horenstein CI, Chen-Weiner J, Ram AFJ, Kapteyn JC, Roemer TW, Vo DH, Bondoc DC, Hall J, Zhong WW, Sdicu AM, Davies J, Klis FM, Robbins PW, Bussey H. 1997. Large scale identification of genes involved in cell surface biosynthesis and architecture in Saccharomyces cerevisiae. Genetics 147:435-450.
51. Masison DC, Maddelein ML, Wickner RB. 1997. The prion model for [URE3] of yeast: Spontaneous generation and requirements for propagation. Proc Natl Acad Sci USA 94:12503-12508.
52. McKusick VA, (with the assistance of Francomano CA, Antonarakis SE, Pearson PL). 1994. Mendelian inheritance in man: A catalog of human genes and genetic disorders. Baltimore, MD: Johns Hopkins University Press. (Web site: http://www.ncbi.nlm.nih. gov/Omim/).
53. Nakamura Y, Ito K, Isaksson, L. 1996. Emerging understanding of translation termination. Cell 87:147-150.
54. Patino MM, Liu JJ, Glover JR, Lindquist S. 1996. Support for the prion hypothesis for inheritance of a phenotypic trait in yeast. Science 273:622-626.
55. Palmer E, Wilhelm J, Sherman F. 1979. Phenotypic suppression of nonsense mutants in yeast by aminoglycoside antibiotics. Nature 277:148-150.
56. +] determinant is mediated by the oligomerization of the SUP35-encoded polypeptide chain release factor. EMBO J 15:3127-3134.
57. Paushkin SV, Kushnirov VV, Smirnov VN, Ter-Avanesyan MD. 1997a. In vitro propagation of the prion-like state of yeast Sup35 protein. Science 277:381-383.
58. Paushkin SV, Kushnirov VV, Smirnov VN, Ter-Avanesyan MD. 1997b. Interaction between yeast Sup45p(eRF1 ) and Sup35p(eRF3) polypeptide chain release factors: Implications for prion-dependent regulation. Mol Cell Biol 17:2798-2805.
59. Perlick HA, Medghalchi SM, Spencer FA, Kendzior RJ Jr, Dietz HC. 1996. Mammalian orthologues of a yeast regulator of nonsense-transcript stability. Proc Natl Acad Sci USA 93:10928-10932.
60. Rose MD, Winston DF, Hieter P. 1990. Methods in yeast genetics. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press.
61. Rozen F, Edery I, Meerovitch K, Dever TE, Merrick WC, Sonenberg N. 1990. Bidirectional RNA helicase activity of eucaryotic translation initiation factors 4A and 4F. Mol Cell Biol 10:1134-1144.
62. Ruiz-Echevarria MJ, Czaplinski K, Peltz SW. 1996. Making sense of nonsense in yeast. Trends Biochem Sci 21:433-438.
63. Scheffner M, Knippers R, and Stahl H. 1989. RNA unwinding activity of SV40 large T antigen. Cell 57:955-963.
64. Scheistl RH, Geitz RD. 1989. High efficiency transformation of intact yeast cells using single-stranded nucleic acids as a carrier. Curr Genetics 16:339-346.
65. Schena M, Yamamoto KR. 1988. Mammalian glucocorticoid receptor derivatives enhance transcription in yeast. Science 241:965-967.
66. Singh A, Ursic D, Davies J. 1979. Phenotypic suppression and misreading Saccharomyces cerevisiae. Nature 277:146-148.
67. Snay Hodge CA, Colot HV, Goldstein AL, Cole C. 1998. Dbp5p/ Rat8p is a yeast nuclear pore-associated DEAD-box protein essential for RNA export. EMBO J 17:2663-2676.
68. Song H, Mugnier P, Das AK, Webb HM, Evans DR, Tuite MF, Hemmings BA, Barford D. 2000. The crystal structure of human eukaryotic release factor eRF1 : Mechanism of stop codon recognition and peptidyl-tRNA hydrolysis. Cell 100:311-321.
69. Song JM, Liebman SW. 1987. Allosuppressors that enhance the efficiency of omnipotent suppressors in Saccharomyces cerevisiae. Genetics 115:451-460.
70. Song JM, Picologlou S, Grant CM, Firoozan M, Tuite MF, Leibman S. 1989. Elongation factor 1 gene dosage alters translational fidelity in Saccharomyces cerevisiae. Mol Cell Biol 9:4571-4575.
71. Staley JP, Guthrie C. 1998. Mechanical devices of the spliceosome: Motors, clocks, springs, and things. Cell 92:315-326.
72. Stansfield I, Jones KM, Kushnirov VV, Dagakesamanskaya AR, Poznyakov AI, Paushkin SV, Nierras CR, Cox BS, Ter-Avanesyan MD, Tuite MF. 1995. The products of the SUP45(eRF1 ) and SUP35 genes interact to mediate translation termination in Saccharomyces cerevisiae. EMBO J 14:4365-4373.
73. Stansfield I, Tuite MF. 1994. Polypeptide chain termination in Saccharomyces cerevisiae. Curr Genet 25:385-395.
74. Subramanya HS, Bird LE, Brannigan JA, Wigley DB. 1996. Crystal structure of DExx box DNA helicases. Nature 354:379-383.
75. Sun W, Perlick HA, Deitz HC, Maquat LE. 1998. The mutated human homologue of yeast upf1 protein has a dominant negative effect on the decay of nonsense-containing mRNAs in mammalian cells. Proc Natl Acad Sci USA 95:10009-10014.
76. Ter-Avanesyan MD, Kushnirov W, Dagkesamanskaya AR, Didichenko SA, Chernoff YO, Inge-Vechtomov SG, Smirnov VN. 1993. Deletion analysis of the SUP35 gene of the yeast Saccharomyces cerevisiae reveals two non-overlapping functional regions in the encoded protein. Mol Microbiol 7:683-692.
77. Tseng SS, Weaver PL, Liu Y, Hitomi M, Tartakoff AM, Chang TH. 1998. Dbp5p, a cytosolic RNA helicase, is required for poly (A) + RNA export. EMBO J 17:2651-2662.
78. Velankar SS, Soultanos P, Dillingham MS, Subramanya HS, Wigley DB. 1999. Crystal structures of complexes of PcrA DNA Helicase with a DNA substrate indicate an inchworm mechanism. Cell 97:75-84.
79. Venema J, Bousquet-Antonelli C, Gelugne JP, Caizergues-Ferrer M, Tollervey D. 1997. Roklp is a putative RNA helicase required for rRNA processing. Mol Cell Biol 17:3398-3407.
80. Venema J, Tollervey D. 1995. Processing of pre-ribosomal RNA in Saccharomyces cerevisiae. Yeast 11:1629-1650.
81. Venkatesan M, Silver LL, Nossal NG. 1982. Bacteriophage T4 Gene 41 protein, required for synthesis of RNA primers, is also a DNA helicase. J Biol Chem 257:12426-12434.
82. Vincent A, Newnam G, Liebman SW. 1994. The yeast translational allosuppressor, SAL6: A new member of the PP1-like phosphatase family with a long serine-rich N-terminal extension. Genetics 138:597-608.
83. Wells DR, Tanguay RL, Le H, Gallie DR. 1998. HSP101 functions as a specific translational regulatory protein whose activity is regulated by nutrient status. Genes & Dev 12:3236-3251.
84. Weng Y, Czaplinski K, Peltz SW. 1996a. Genetic and biochemical characterization of the mutations in the ATPase and helicase regions of Upf1 Protein. Mol Cell Biol 16:5477-5490.
85. Weng Y, Czaplinski K, Peltz SW. 1996b. Identification and characterization of mutations in the UPF1 gene that affect nonsense suppression and the formation of the Upf protein complex, but not mRNA turnover. Mol Cell Biol 16:5491-5506.
86. Weng Y, Czaplinski K, Peltz SW. 1998. ATP is a cofactor of the Upf1 protein that modulates its translation termination and RNA bind-ing activities. RNA 4:205-214.
87. Weng Y, Ruiz-Echevarria MJ, Zhang S, Cui Y, Czaplinski K, Dinman JD, Peltz SW. 1997. Characterization of the nonsense-mediated mRNA decay pathway and its effect on modulating translation termination and programmed frameshifting. In: Harford JB, Morris DR, eds. mRNA metabolism andpost-transcriptional gene regulation. New York: Wiley-Liss, Inc. pp 241-263.
88. Wickner RB. 1994. [URE3] as an altered URE2 protein: Evidence for a prion analog in Saccharomyces cerevisiae. Science 264:566-569.
89. Winey M, Culbertson MR. 1988. Mutations affecting the tRNA-splicing endonuclease activity of Saccharomyces cerevisiae. Genetics 118:607-617.
90. Zhang S, Grosse F. 1994. Nuclear DNA Helicase II unwinds both DNA and RNA. Biochemistry 33:3906-3912.
91. Zhouravleva G, Frolova L, LeGoff X, LeGuellec R, Inge-Vechtomov S, Kisselev L, Phillippe M. 1995. Termination of translation in eukaryotes is governed by two interacting polypeptide chain release factors, eRF1 and eRF3. EMBO J 14:4065-4072.