Possible involvement of Escherichia coli 23S ribosomal RNA in peptide bond formation

RNA

Volumn 4, Issue 3, 1998, Pages 257-267

  Nitta, Itaru ^a   Ueda, Takuya ^a   Watanabe, Kimitsuna ^a  

^a UNIVERSITY OF TOKYO   (Japan)

Author keywords

Carbomycin; Chloramphenicol; N acetylphenylalanyl tRNA(Phe); Peptidyltransferase; Phenylalanyl tRNA(Phe); Site directed mutation

Indexed keywords

CARBOMYCIN; CHLORAMPHENICOL; RNA 23S;

ARTICLE; BACTERIAL GENE; ENZYME ACTIVITY; ENZYME KINETICS; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; PROTEIN SYNTHESIS; RIBOSOME; SITE DIRECTED MUTAGENESIS;

CHLORAMPHENICOL; DIPEPTIDES; ESCHERICHIA COLI; KINETICS; LEUCOMYCINS; MUTATION; PEPTIDES; PEPTIDYL TRANSFERASES; RIBONUCLEASES; RNA, RIBOSOMAL; RNA, RIBOSOMAL, 23S; RNA, TRANSFER, AMINO ACYL; RNA, TRANSFER, PHE; SODIUM DODECYL SULFATE; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

EID: 0031906988     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (45)

1. Agrawal RK, Penczek P, Grassucci RA, Li Y, Leith A, Nierhaus KH, Frank J. 1996. Direct visualization of A-, P-, and E-site transfer RNAs in the Escherichia coli ribosome. Science 271:1000-1002.
2. Baer MF, Arnez JG, Takada CG, Vioque A, Altman S. 1990. Preparation and characterization of RNase P from Escherichia coli. Methods Enzymol 181:569-582.
3. 4+/polyamine system for polyuridine-dependent polyphenylalanine synthesis with near in vivo characteristics. Methods Enzymol 164:650-658.
4. Cech TR, Zaug AJ, Grabowski PJ. 1981. In vitro splicing of the ribosomal RNA precursor of Tetrahymena. Involvement of a guanosine nucleotide in the excision of the intervening sequence. Cell 27:487-496.
5. Cerna J, Rychlik I, Joneak J. 1973. Peptidyl-transferase activity of Escherichia coli ribosomes digested by ribonuclease T 1. Eur J Biochem 34:551-556.
6. Cundliffe E. 1990. Recognition sites for antibiotics within rRNA. In: Hill WE et al., eds. The ribosome, structure, function and evolution. Washington, DC: American Society for Microbiology. pp 479-490.
7. Davanloo P, Rosenberg AH, Dunn JJ, Studier FW. 1984. Cloning and expression of the gene for bacteriophage T7 RNA polymerase. Proc Natl Acad Sci USA 81:2035-2039.
8. Franceschi FJ, Nierhaus KH. 1990. Ribosomal proteins L15 and L16 are mere late assembly proteins of the large ribosomal subunit. J Biol Chem 265:16676-16682.
9. Frank J, Zhu J, Penczek P, Li Y, Srivastava S, Verschoor A, Radermacher M, Grassucci R, Lata RK, Agrawal RK. 1995. A model of protein synthesis based on cryo-electron microscopy of the E. coli ribosome. Nature 376:441-444.
10. Green R, Noller HF. 1996. In vitro complementation analysis localizes 23S rRNA posttranscriptional modifications that are required for Escherichia coli 50S ribosomal subunit assembly and function. RNA 2:1011-1021.
11. Gregory ST, Lieberman KR, Dahlberg AE. 1994. Mutations in the peptidyl transferase region of E. coli 23S rRNA affecting translational accuracy. Nucleic Acids Res 22:279-284.
12. Guerrier-Takada C, Gardiner K, Marsh T, Pace N, Altman S. 1983. The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme. Cell 35:849-857.
13. Herschlag D, Cech TR. 1990. Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 1. Kinetic description of the reaction of an RNA substrate complementary to the active site. Biochemistry 29:10159-10171.
14. Hosaka H, Sakabe I, Sakamoto K, Yokoyama S, Takaku H. 1994. Sequence-specific cleavage of oligoribonucleotide capable of forming a stem and loop structure. J Biol Chem 269:20090-20094.
15. Huttenhofer A, Noller HF. 1992. Hydroxyl radical cleavage of tRNA in the ribosomal P site. Proc Natl Acad Sd USA 89:7851-7855.
16. Lake JA. 1982. Ribosomal subunit orientations determined in the monomeric ribosome by single and by double-labeling immune electron microscopy. J Mol Biol 161:89-106.
17. Moazed D, Noller HF. 1987. Chloramphenicol, erythromycin, carbomycin and vernamycin B protect overlapping sites in the peptidyl transferase region of 23S ribosomal RNA. Biochimie 69:879-884.
18. Moazed D, Noller HF. 1989. Interaction of tRNA with 23S rRNA in the ribosomal A, P, and E sites. Cell 57:585-597.
19. Monro RE. 1971. Ribosomal peptidyltransferase: The fragment reaction. Methods Enzymol 20:472-481.
20. Nierhaus KH. 1990. Reconstitution of ribosomes. In: Spedding G, ed. Ribosomes and protein synthesis, a practical approach. Oxford: IRL Press, pp 161-189.
21. Nierhaus KH, Dohme F. 1974. Total reconstitution of functionally active 50S ribosomal subunits from Escherichia coli. Proc Natl Acad Sci USA 71:4713-4717.
22. Nitta I, UedaT, Watanabe K. 1994. Template-dependent peptide formation on ribosomes catalyzed by pyridine. J Biochem (Tokyo) 115:803-807.
23. Nitta I, Ueda T, Watanabe K. 1995. Template-dependent polypeptide synthesis in a factor- and energy-free translation system promoted by pyridine. J Biochem (Tokyo) 118:841-849.
24. Nojima T, Nitta I, Ueda T, Watanabe K. 1996. Pyridine-promoted factor- and energy-free peptide synthesis system prepared from various organisms including prokaryote, eukaryote and mitochondria. J Biochem (Tokyo) 119:1076-1079.
25. Noller HF. 1991. Ribosomal RNA and translation. Annu Rev Biochem 60:191-227.
26. Noller HF. 1993. Peptidyl transferase: Protein, ribonucleoprotein, or RNA? J Bacteriol 175:5297-5300.
27. Noller HF, Hoffarth V, Zimniak L. 1992. Unusual resistance of peptidyl transferase to protein extraction procedures. Science 256:1416-1419.
28. Pley HW, Flaherty KM, Mckay DB. 1994. Three-dimensional structure of a hammerhead ribozyme. Nature 372:68-74.
29. Przykorska A. 1995. Influence of modified nucleosides on tRNA structure as probed by two plant nucleases. Biochimie 77:109-112.
30. Raúe HA, Klootwijk J, Musters W. 1988. Evolutionary conservation of structure and function of high molecular weight ribosomal RNA. Prog Biophys Mol Biol 51:77-129.
31. Rheinberger HJ, Geigenmüller U, Wedde M, Nierhaus KH. 1988. Parameters for the preparation of Escherichia coli ribosomes and ribosomal subunits active in tRNA binding. Methods Enzymol 164:658-670.
32. 2+ ions. Eur J Biochem 34:262-267.
33. Samaha RR, Green R, Noller HF. 1995. A base pair between tRNA and 23S rRNA in the peptidyl transferase center of the ribosome. Nature 377:309-314.
34. Schilling-Bartetzko S, Franceschi F, Sternbach H, Nierhaus KH. 1992. Apparent association constants of tRNAs for the ribosomal A, P, and E sites. J Biol Chem 267:4693-4702.
35. Schulze H, Nierhaus KH. 1982. Minimal set of ribosomal components for reconstitution of the peptidyltransferase activity. EMBO J 1:609-613.
36. Spahn CMT, Remme J, Schäfer MA, Nierhaus KH. 1996. Mutational analysis of two highly conserved UGG sequences of 23S rRNA from Escherichia coli J Biol Chem 271:32849-32856.
37. Traut RR, Monro RE. 1964. The puromycin reaction and its relation to protein synthesis. J Mol Biol 10:63-72.
38. Ungewickell E, Garrett RA, Le Bret M. 1977. Native and denatured structures within the 5'-region of 16 S ribosomal RNA from Escherichia coli. FEBS Lett 84:37-42.
39. van Tol H, Gross HJ, Beier H. 1989. Non-enzymatic excision of pre-tRNA introns? EMBO J 8:293-300.
40. Vasiliev VD, Serdyuk IN, GudkovAT, Spirin AS. 1986. Self-organization of ribosomal RNA. In: Hardesty B, Kramer G, eds. Structure, function and genetics of ribosomes. New York: Springer-Verlag. pp 128-142.
41. Waldrop MM. 1992. Finding RNA makes proteins gives "RNA world" a big boost. Science 256:1396-1397.
42. Weitzmann CJ, Cunningham PR, Ofengand J. 1990. Cloning, in vitro transcription, and biological activity of Escherichia coli 23S ribosomal RNA. Nucleic Acids Res 18:3515-3520.
43. Watanabe K, Seno T, Nishimura S, Oshima T, Imahori K. 1973. The study of circular dichroic difference spectra applied to polynucleotides and ribonucleic acids. Polymer J 4:539-552.
44. Yokoyama S, Watanabe K, Miyazawa T. 1987. Dynamic structures and functions of transfer ribonucleic acids from extreme thermophiles. Adv Biophys 23:115-147.
45. Zawadzki V, Gross HJ. 1991. Rapid and simple purification of T7 RNA polymerase. Nucleic Acids Res 19:1948.