Elongation factors on the ribosome

Current Opinion in Structural Biology

Volumn 15, Issue 3 SPEC. ISS., 2005, Pages 349-354

  Nilsson, Jakob ^a   Nissen, Poul ^a  

^a AARHUS UNIVERSITY   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTOR PROTEIN; ELONGATION FACTOR; ELONGATION FACTOR G; ELONGATION FACTOR TU; GUANOSINE DIPHOSPHATE; GUANOSINE TRIPHOSPHATASE; GUANOSINE TRIPHOSPHATE; MESSENGER RNA; TRANSFER RNA;

ACCURACY; AMINO ACID SEQUENCE; BIOCHEMISTRY; COMPLEX FORMATION; ENZYME ACTIVATION; ENZYME ACTIVITY; HUMAN; NONHUMAN; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; PROTEIN TRANSPORT; REVIEW; RIBOSOME; RNA SEQUENCE; RNA TRANSLATION; STRUCTURE ANALYSIS;

EID: 20444490272     PISSN: 0959440X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.sbi.2005.05.004     Document Type: Review

References (33)

1. D.N. Wilson, and K.H. Nierhaus The ribosome through the looking glass Angew Chem Int Ed Engl 42 2003 3464 3486
2. H.F. Noller, M.M. Yusupov, G.Z. Yusupova, A. Baucom, and J.H. Cate Translocation of tRNA during protein synthesis FEBS Lett 514 2002 11 16
3. M.M. Yusupov, G.Z. Yusupova, A. Baucom, K. Lieberman, T.N. Earnest, J.H. Cate, and H.F. Noller Crystal structure of the ribosome at 5.5 Å resolution Science 292 2001 883 896
4. S. Pestka Studies on the formation of transfer ribonucleic acid-ribosome complexes. VI. Oligopeptide synthesis and translocation on ribosomes in the presence and absence of soluble transfer factors J Biol Chem 244 1969 1533 1539
5. A.R. Cukras, D.R. Southworth, J.L. Brunelle, G.M. Culver, and R. Green Ribosomal proteins S12 and S13 function as control elements for translocation of the mRNA:tRNA complex Mol Cell 12 2003 321 328
6. M.V. Rodnina, A. Savelsbergh, V.I. Katunin, and W. Wintermeyer Hydrolysis of GTP by elongation factor G drives tRNA movement on the ribosome Nature 385 1997 37 41
7. W. Wintermeyer, F. Peske, M. Beringer, K.B. Gromadski, A. Savelsbergh, and M.V. Rodnina Mechanisms of elongation on the ribosome: dynamics of a macromolecular machine Biochem Soc Trans 32 2004 733 737
8. J.M. Ogle, A.P. Carter, and V. Ramakrishnan Insights into the decoding mechanism from recent ribosome structures Trends Biochem Sci 28 2003 259 266
9. K.B. Gromadski, and M.V. Rodnina Kinetic determinants of high-fidelity tRNA discrimination on the ribosome Mol Cell 13 2004 191 200
10. T. Pape, W. Wintermeyer, and M. Rodnina Induced fit in initial selection and proofreading of aminoacyl-tRNA on the ribosome EMBO J 18 1999 3800 3807
11. S.C. Blanchard, R.L. Gonzalez, H.D. Kim, S. Chu, and J.D. Puglisi tRNA selection and kinetic proofreading in translation Nat Struct Mol Biol 11 2004 1008 1014 Using single-molecule fluorescence techniques, the delivery and selection of aa-tRNA was studied. The authors identify novel tRNA states on the ribosome and the method reveals the dynamics of the process.
12. J.M. Ogle, F.V. Murphy, M.J. Tarry, and V. Ramakrishnan Selection of tRNA by the ribosome requires a transition from an open to a closed form Cell 111 2002 721 732
13. K.B. Gromadski, and M.V. Rodnina Streptomycin interferes with conformational coupling between codon recognition and GTPase activation on the ribosome Nat Struct Mol Biol 11 2004 316 322
14. M. Valle, A. Zavialov, W. Li, S.M. Stagg, J. Sengupta, R.C. Nielsen, P. Nissen, S.C. Harvey, M. Ehrenberg, and J. Frank Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy Nat Struct Biol 10 2003 899 906 A 9 Å cryo-EM map of the ternary complex on the ribosome is presented. The map shows a kink in the tRNA structure during the delivery process, and shines light on the coupling between decoding and stimulation of the GTPase activity of EF-Tu.
15. P. Nissen, M. Kjeldgaard, S. Thirup, G. Polekhina, L. Reshetnikova, B.F. Clark, and J. Nyborg Crystal structure of the ternary complex of Phe-tRNAPhe, EF-Tu, and a GTP analog Science 270 1995 1464 1472
16. D. Moazed, and H.F. Noller Intermediate states in the movement of transfer RNA in the ribosome Nature 342 1989 142 148
17. P. Nissen, J. Ippolito, N. Ban, P.B. Moore, and T.A. Steitz RNA tertiary interactions in the large ribosomal subunit: the A-minor motif Proc Natl Acad Sci USA 98 2001 4899 4903
18. D.J. Battle, and J. Doudna Specificity of RNA-RNA helix recognition Proc Natl Acad Sci USA 99 2002 11676 11681
19. Y.P. Semenkov, M.V. Rodnina, and W. Wintermeyer Energetic contribution of tRNA hybrid state formation to translocation catalysis on the ribosome Nat Struct Biol 7 2000 1027 1031
20. S.C. Blanchard, H.D. Kim, R.L. Gonzalez Jr., J.D. Puglisi, and S. Chu tRNA dynamics on the ribosome during translation Proc Natl Acad Sci USA 101 2004 12893 12898 A system for studying translation on single ribosomes is presented. It reveals that tRNAs rapidly equilibrate between classical and hybrid states on the ribosome.
21. M. Valle, A. Zavialov, J. Sengupta, U. Rawat, M. Ehrenberg, and J. Frank Locking and unlocking of ribosomal motions Cell 114 2003 123 134 Several complexes of EF-G bound to the ribosome are visualized by cryo-EM. The study reveals that only when a peptidyl-tRNA is absent from the P-site will EF-G induce the ratchet motion of the two subunits.
22. T.M. Schmeing, A.C. Seila, J.L. Hansen, B. Freeborn, J.K. Soukup, S.A. Scaringe, S.A. Strobel, P.B. Moore, and T.A. Steitz A pre-translocational intermediate in protein synthesis observed in crystals of enzymatically active 50S subunits Nat Struct Biol 9 2002 225 230
23. J.L. Hansen, T.M. Schmeing, P.B. Moore, and T.A. Steitz Structural insights into peptide bond formation Proc Natl Acad Sci USA 99 2002 11670 11675
24. K. Fredrick, and H.F. Noller Catalysis of ribosomal translocation by sparsomycin Science 300 2003 1159 1162 It is shown that the compound sparsomycin can catalyze accurate translocation of tRNA, supporting the notion that translocation is an inherent activity of the ribosome.
25. A.V. Zavialov, and M. Ehrenberg Peptidyl-tRNA regulates the GTPase activity of translation factors Cell 114 2003 113 122 An efficient in vitro system with well-defined ribosome complexes shows that the peptidyl-tRNA in the P-site regulates the activity of EF-G, but not that of the ternary complex. The study explains how the activities of the elongation factors are coordinated.
26. N. Ban, P. Nissen, J. Hansen, P.B. Moore, and T.A. Steitz The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution Science 289 2000 905 920
27. A. Savelsbergh, V.I. Katunin, D. Mohr, F. Peske, M.V. Rodnina, and W. Wintermeyer An elongation factor G-induced ribosome rearrangement precedes tRNA-mRNA translocation Mol Cell 11 2003 1517 1523 A thorough kinetic analysis of the translocation process is presented. The study reveals that the rate-limiting step of translocation is a rearrangement of the ribosome driven by GTP hydrolysis on EF-G.
28. J. Frank, and R.K. Agrawal A ratchet-like inter-subunit reorganization of the ribosome during translocation Nature 406 2000 318 322
29. R.K. Agrawal, A.B. Heagle, P. Penczek, R.A. Grassucci, and J. Frank EF-G-dependent GTP hydrolysis induces translocation accompanied by large conformational changes in the 70S ribosome Nat Struct Biol 6 1999 643 647
30. F. Peske, N.B. Matassova, A. Savelsbergh, M.V. Rodnina, and W. Wintermeyer Conformationally restricted elongation factor G retains GTPase activity but is inactive in translocation on the ribosome Mol Cell 6 2000 501 505
31. R. Jorgensen, P.A. Ortiz, A. Carr-Schmid, P. Nissen, T.G. Kinzy, and G.R. Andersen Two crystal structures demonstrate large conformational changes in the eukaryotic ribosomal translocase Nat Struct Biol 10 2003 379 385 Crystal structures of the eukaryotic translocase, eEF2, solved with and without sordarin reveal large conformational changes.
32. C.M. Spahn, M.G. Gomez-Lorenzo, R.A. Grassucci, R. Jorgensen, G.R. Andersen, R. Beckmann, P.A. Penczek, J.P. Ballesta, and J. Frank Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation EMBO J 23 2004 1008 1019
33. J. Czworkowski, and P.B. Moore The conformational properties of elongation factor G and the mechanism of translocation Biochemistry 36 1997 10327 10334