title: The role of fluctuations in tRNA selection by the ribosome.
abstract: The detailed mechanism of how the ribosome decodes protein sequence information with an abnormally high accuracy, after 40 years of study, remains elusive. A critical element in selecting correct transfer RNA (tRNA) transferring correct amino acid is "induced fit" between the ribosome and tRNA. By using single-molecule methods, the induced fit mechanism is shown to position favorably the correct tRNA after initial codon recognition. We provide evidence that this difference in positioning and thermal fluctuations constitutes the primary mechanism for the initial selection of tRNA. This work demonstrates thermal fluctuations playing a critical role in the substrate selection by an enzyme.
authors: Departments of Physics and Applied Physics, Stanford University, Stanford, CA 94305, USA.
authors: Tae-Hee
authors: TH
authors: Lee
authors: Scott C
authors: SC
authors: Blanchard
authors: Harold D
authors: HD
authors: Kim
authors: Joseph D
authors: JD
authors: Puglisi
authors: Steven
authors: S
authors: Chu
mesh_terms: D031541:Fluorescence Resonance Energy Transfer; D007700:Kinetics; D008954:Models, Biological; D012343:RNA, Transfer / Q000235:genetics*; D012270:Ribosomes / Q000235:genetics*
chemical_list: D012343:RNA, Transfer
references: Trends Biochem Sci. 2001 Feb;26(2):124-30
references: 11166571
references: Cell. 1986 Dec 26;47(6):985-94
references: 2430725
references: Proc Natl Acad Sci U S A. 2004 Aug 31;101(35):12893-8
references: 15317937
references: EMBO J. 1990 Aug;9(8):2649-55
references: 2196177
references: Nat Struct Mol Biol. 2004 Oct;11(10):1008-14
references: 15448679
references: EMBO J. 1993 Apr;12(4):1499-504
references: 7682175
references: Proc Natl Acad Sci U S A. 1974 Oct;71(10):4135-9
references: 4530290
references: Nature. 1987 Jun 4-10;327(6121):389-94
references: 2953976
references: EMBO J. 1991 Oct;10(10):3099-103
references: 1915283
references: Nat Struct Biol. 2002 Nov;9(11):849-54
references: 12379845
references: Trends Biochem Sci. 2003 May;28(5):259-66
references: 12765838
references: Nat Struct Biol. 2003 Nov;10(11):899-906
references: 14566331
references: Science. 2001 May 4;292(5518):883-96
references: 11283358
references: RNA. 2007 Dec;13(12):2091-7
references: 17951333
references: Cell. 2002 Feb 22;108(4):557-72
references: 11909526
references: FEBS Lett. 2005 Feb 7;579(4):959-62
references: 15680982
references: Annu Rev Biochem. 1997;66:679-716
references: 9242921
references: Cell. 2002 Nov 27;111(5):721-32
references: 12464183
references: J Mol Biol. 1994 Jan 7;235(1):156-72
references: 8289238
references: Proc Natl Acad Sci U S A. 1979 Jul;76(7):3174-8
references: 290995
references: Science. 2000 Aug 11;289(5481):920-30
references: 10937990
references: Proc Natl Acad Sci U S A. 1980 Jul;77(7):4007-10
references: 7001453
references: Proc Natl Acad Sci U S A. 1996 Jun 25;93(13):6264-8
references: 8692803
references: EMBO J. 2002 Jul 1;21(13):3557-67
references: 12093756
references: Science. 2005 May 20;308(5725):1178-80
references: 15905403
references: EMBO J. 1998 Dec 15;17(24):7490-7
references: 9857203
references: Science. 2001 May 4;292(5518):897-902
references: 11340196
references: Science. 1995 Dec 1;270(5241):1464-72
references: 7491491