Mutations at the accommodation gate of the ribosome impair RF2-dependent translation termination

RNA

Volumn 16, Issue 9, 2010, Pages 1848-1853

  Burakovsky, Dmitry E ^a,b   Sergiev, Petr V ^a   Steblyanko, Maria A ^a,e   Kubarenko, Andriy V ^c,f   Konevega, Andrey L ^b,d   Bogdanov, Alexey A ^a   Rodnina, Marina V ^b,c   Dontsova, Olga A ^a  

^a MOSCOW STATE UNIVERSITY   (Russian Federation)

^b MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

^c UNIVERSITY OF WITTEN HERDECKE   (Germany)

^d PETERSBURG NUCLEAR PHYSICS INSTITUTE   (Russian Federation)

^e THOMAS JEFFERSON UNIVERSITY   (United States)

^f GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

Author keywords

Accommodation; Decoding; Release factor; Ribosome; Translation

Indexed keywords

AMINOACYL TRANSFER RNA; BACTERIAL PROTEIN; RELEASE FACTOR 2; RNA 23S; UNCLASSIFIED DRUG; ESCHERICHIA COLI PROTEIN; PEPTIDE CHAIN TERMINATION RELEASE FACTOR 2; TRANSFER RNA; TRANSLATION TERMINATION FACTOR;

ARTICLE; CATALYSIS; ESCHERICHIA COLI; GENE MUTATION; PRIORITY JOURNAL; PROTEIN SECRETION; RIBOSOME; RNA TRANSLATION; SITE DIRECTED MUTAGENESIS; GENETICS; METABOLISM; MUTATION; PROTEIN SYNTHESIS;

ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; MUTAGENESIS, SITE-DIRECTED; MUTATION; PEPTIDE CHAIN TERMINATION, TRANSLATIONAL; PEPTIDE TERMINATION FACTORS; PROTEIN BIOSYNTHESIS; RIBOSOMES; RNA, RIBOSOMAL, 23S; RNA, TRANSFER;

EID: 77956026059     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.2185710     Document Type: Article

References (25)

1. Asai T, Zaporojets D, Squires C, Squires CL. 1999. An Escherichia coli strain with all chromosomal rRNA operons inactivated: Complete exchange of rRNA genes between bacteria. Proc Natl Acad Sci 96: 1971-1976. (Pubitemid 29117852)
2. Beringer M, Bruell C, Xiong L, Pfister P, Bieling P, Katunin VI, Mankin AS, Bottger EC, Rodnina MV. 2005. Essential mechanisms in the catalysis of peptide bond formation on the ribosome. J Biol Chem 280: 36065-36072.
3. Bieling P, Beringer M, Adio S, Rodnina MV. 2006. Peptide bond formation does not involve acid-base catalysis by ribosomal residues. Nat Struct Mol Biol 13: 423-428.
4. Borovinskaya MA, Pai RD, Zhang W, Schuwirth BS, Holton JM, Hirokawa G, Kaji H, Kaji A, Cate JH. 2007. Structural basis for aminoglycoside inhibition of bacterial ribosome recycling. Nat Struct Mol Biol 14: 727-732.
5. Chan YL, Dresios J, Wool IG. 2006. A pathway for the transmission of allosteric signals in the ribosome through a network of RNA tertiary interactions. J Mol Biol 355: 1014-1025.
6. Cupples CG, Miller JH. 1989. A set of lacZ mutations in Escherichia coli that allow rapid detection of each of the six base substitutions. Proc Natl Acad Sci 86: 5345-5349.
7. Gregory ST, Dahlberg AE. 1999. Erythromycin resistance mutations in ribosomal proteins L22 and L4 perturb the higher order structure of 23 S ribosomal RNA. J Mol Biol 289: 827-834.
8. Katunin VI, Muth GW, Strobel SA, Wintermeyer W, Rodnina MV. 2002. Important contribution to catalysis of peptide bond formation by a single ionizing group within the ribosome. Mol Cell 10: 339-346. (Pubitemid 35007348)
9. Korostelev A, Asahara H, Lancaster L, Laurberg M, Hirschi A, Zhu J, Trakhanov S, Scott WG, Noller HF. 2008. Crystal structure of a translation termination complex formed with release factor RF2. Proc Natl Acad Sci 105: 19684-19689.
10. Kunkel TA. 1985. Rapid and efficient site-specific mutagenesis without phenotypic selection. Proc Natl Acad Sci 82: 488-492.
11. Leonov AA, Sergiev PV, Bogdanov AA, Brimacombe R, Dontsova OA. 2003. Affinity purification of ribosomes with a lethal G2655C mutation in 23 S rRNA that affects the translocation. J Biol Chem 278: 25664-25670. (Pubitemid 36835321)
12. Meskauskas A, Dinman JD. 2007. Ribosomal protein L3: Gatekeeper to the A site. Mol Cell 25: 877-888.
13. Milon P, Konevega AL, Peske F, Fabbretti A, Gualerzi CO, Rodnina MV. 2007. Transient kinetics, fluorescence, and FRET in studies of initiation of translation in bacteria. Methods Enzymol 430: 1-30.
14. O'Connor M, Dahlberg AE. 1993. Mutations at U2555, a tRNA-protected base in 23S rRNA, affect translational fidelity. Proc Natl Acad Sci 90: 9214-9218.
15. O'Connor M, Dahlberg AE. 1995. The involvement of two distinct regions of 23 S ribosomal RNA in tRNA selection. J Mol Biol 254: 838-847.
16. Rodnina MV, Wintermeyer W. 1995. GTP consumption of elongation factor Tu during translation of heteropolymeric mRNAs. Proc Natl Acad Sci 92: 1945-1949.
17. Rodnina MV, Fricke R, Wintermeyer W. 1994. Transient conformational states of aminoacyl-tRNA during ribosome binding catalyzed by elongation factor Tu. Biochemistry 33: 12267-12275. (Pubitemid 24328046)
18. Rodnina MV, Savelsbergh A, Matassova NB, Katunin VI, Semenkov YP, Wintermeyer W. 1999. Thiostrepton inhibits the turnover but not the GTPase of elongation factor G on the ribosome. Proc Natl Acad Sci 96: 9586-9590.
19. Sanbonmatsu KY, Joseph S, Tung CS. 2005. Simulating movement of tRNA into the ribosome during decoding. Proc Natl Acad Sci 102: 15854-15859.
20. Sergiev PV, Bogdanov AA, Dahlberg AE, Dontsova O. 2000. Mutations at position A960 of E. coli 23 S ribosomal RNA influence the structure of 5 S ribosomal RNA and the peptidyltransferase region of 23 S ribosomal RNA. J Mol Biol 299: 379-389.
21. Sergiev PV, Kiparisov SV, Burakovsky DE, Lesnyak DV, Leonov AA, Bogdanov AA, Dontsova OA. 2005. The conserved A-site finger of the 23S rRNA: Just one of the intersubunit bridges or a part of the allosteric communication pathway? J Mol Biol 353: 116-123.
22. Shaw JJ, Green R. 2007. Two distinct components of release factor function uncovered by nucleophile partitioning analysis. Mol Cell 28: 458-467. (Pubitemid 350030565)
23. Stern S, Moazed D, Noller HF. 1988. Structural analysis of RNA using chemical and enzymatic probing monitored by primer extension. Methods Enzymol 164: 481-489.
24. Weixlbaumer A, Jin H, Neubauer C, Voorhees RM, Petry S, Kelley AC, Ramakrishnan V. 2008. Insights into translational termination from the structure of RF2 bound to the ribosome. Science 322: 953-956.
25. Zamir A, Miskin R, Vogel Z, Elson D. 1974. The inactivation and reactivation of Escherichia coli ribosomes. Methods Enzymol 30: 406-426.