Ribosome hijacking: A role for small protein B during trans-translation

EMBO Reports

Volumn 10, Issue 2, 2009, Pages 160-165

  Nonin Lecomte, Sylvie ^a   Germain Amiot, Noella ^b   Gillet, Reynald ^b   Hallier, Marc ^b   Ponchon, Luc ^a   Dardel, Frédéric ^a   Felden, Brice ^b  

^a CNRS   (France)

^b UNIVERSITÉ DE RENNES 1   (France)

Author keywords

[No Author keywords available]

Indexed keywords

INITIATION FACTOR 1; MESSENGER RNA; RIBOSOME PROTEIN; RNA 16S; TRANSFER RNA;

ANTICODON; ARTICLE; CODON; GENE MUTATION; MOLECULAR INTERACTION; MOLECULAR RECOGNITION; NONHUMAN; NUCLEAR MAGNETIC RESONANCE IMAGING; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN FUNCTION; PROTEIN STRUCTURE; PROTEIN SYNTHESIS; RNA TRANSLATION; STRUCTURAL HOMOLOGY;

ALANINE; ANTICODON; CODON; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; MODELS, MOLECULAR; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; NUCLEIC ACID CONFORMATION; PROKARYOTIC INITIATION FACTOR-1; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN INTERACTION MAPPING; RIBOSOMES; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; RNA, TRANSFER, AMINO ACYL; RNA-BINDING PROTEINS; THERMUS THERMOPHILUS;

BACTERIA (MICROORGANISMS);

EID: 59649110308     PISSN: 1469221X     EISSN: 14693178     Source Type: Journal    
DOI: 10.1038/embor.2008.243     Document Type: Article

References (23)

1. Bessho Y, Shibata R, Sekine S, Muruyama K, Higashijima K, Hori-takemoto C, Shirouzu M, Kuramitsu S, Yokoyama S (2007) Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA. Proc Natl Acad Sci USA 104: 8293-8298
2. Carter A, Clemons WM Jr, Brodersen DE, Morgan-Warren RJ, Hartsch T, Wimberly BT, Ramakrishnan V (2001) Crystal structure of an initiation factor bound to the 30S ribosomal subunit. Science 291: 498-501
3. Delaglio F, Grzesiek S, Vuister GW, Zhu G, Pfeifer J, Bax A (1995) NMRPipe: A multidimensional spectral processing system based on UNIX pipes. J Biomol NMR 6: 277-293
4. DeLano WL (2002) The PyMOL Molecular Graphics System. San Carlos, CA, USA: DeLano Scientific LLC http://www.pymol.org
5. Dong G, Nowakowski J, Hoffman DW (2002) Structure of small protein B: the protein component of the tmRNA-SmpB system for ribosome rescue. EMBO J 21: 1845-1854
6. Foster MP, Wuttke DS, Clemens KR, Jahnke W, Radhakrishnan I, Tennant L, Reymond M, Chung J, Wright PE (1998) Chemical shift as a probe of molecular interfaces: NMR studies of DNA binding by the three amino-terminal zinc-finger domains from transcription factor IIIA. J Biomol NMR 12: 51-71
7. Fourmy D, Recht MI, Puglisi JD (1998) Binding of neomycin-class aminoglycoside antibiotics to the A-site of 16 S rRNA. J Mol Biol 277: 347-362
8. Gaudin C, Nonin-Lecomte S, Tisné C, Corvaisier S, Bordeau V, Dardel F, Felden B (2003) The tRNA-like domains of E. coli and A. aeolicus transfer-messenger RNA: Structural and functional studies. J Mol Biol 331: 457-471
9. Gillet R, Kaur S, Li W, Hallier M, Felden B, Frank J (2007) Scaffolding as an organizing principle in trans-translation. J Biol Chem 282: 6356-6363
10. Gutmann S, Haebel PW, Metzinger L, Sutter M, Felden B, Ban N (2003) Crystal structure of the transfer-RNA domain of transfer-messenger RNA in complex with SmpB. Nature 424: 699-703
11. Hallier M, Desreac J, Felden B (2006) Small protein B interacts with the large and the small subunits of a stalled ribosome during trans translation. Nucleic Acids Res 34: 1935-1943
12. Ivanova N, Pavlov MY, Bouakaz E, Ehrenberg M, Schiavone LH (2005) Mapping the interaction of SmpB with ribosomes by footprinting of ribosomal RNA. Nucleic Acids Res 33: 3529-3539
13. Jacob Y, Sharkady SM, Bhardwaj K, Sanda A, Williams KP (2005) Function of the SmpB tail in transfer-messenger RNA translation revealed by a nucleus-encoded form. J Biol Chem 280: 5503-5509
14. Kaur S, Gillet R, Li W, Gursky R, Frank J (2006) Cryo-EM visualization of transfer messenger RNA with two SmpBs in a stalled ribosome. Proc Natl Acad Sci USA 103: 16484-16489
15. Kurita D, Sasaki R, Muto A, Himeno H (2007) Interaction of SmpB with ribosome from directed hydroxyl radical probing. Nucleic Acids Res 35: 7248-7255
16. Moore SD, Sauer RT (2007) The tmRNA system for translational surveillance and ribosome rescue. Annu Rev Biochem 76: 101-124
17. Nameki N et al (2005) Interaction analysis between tmRNA and SmpB from Thermus thermophilus. J Biochem 138: 729-739
18. Noller HF (2006) Evolution of ribosomes and translation from an RNA world. In The RNA World, Gesteland RF, Cech TR, Atkins JF (eds) 3rd edn, Chapter 10, pp 287-307. Cold Spring Harbor, New York, USA: Cold Spring Harbor Laboratory Press
19. Ogle JM, Ramakrishnan V (2005) Structural insights into translational fidelity. Annu Rev Biochem 74: 129-177
20. Ogle JM, Brodersen DE, Clemons WM Jr, Tarry MJ, Carter AP, Ramakrishnan V (2001) Recognition of cognate transfer RNA by the 30S ribosomal subunit. Science 292: 897-902
21. Ponchon L, Dardel F (2007) Recombinant RNA technology: The tRNA scaffold. Nat Methods 4: 571-576
22. 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
23. Valle M, Gillet R, Kaur S, Henne A, Ramakrisnan V, Frank J (2003) Visualizing tmRNA entry into a stalled ribosome. Science 300 127-130