Molecular dynamics of EF‐G during translocation
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Klaus Schulten | Joachim Frank | Leonardo G. Trabuco | Wen Li | K. Schulten | J. Frank | Wen Li | Leonardo G Trabuco | Leonardo G. Trabuco
[1] Joachim Frank,et al. Structure and dynamics of a processive Brownian motor: the translating ribosome. , 2010, Annual review of biochemistry.
[2] Leonardo G. Trabuco,et al. Molecular dynamics flexible fitting: a practical guide to combine cryo-electron microscopy and X-ray crystallography. , 2009, Methods.
[3] J. Frank,et al. Elongation in translation as a dynamic interaction among the ribosome, tRNA, and elongation factors EF-G and EF-Tu , 2009, Quarterly Reviews of Biophysics.
[4] J Frank,et al. Domain motions of EF-G bound to the 70S ribosome: insights from a hand-shaking between multi-resolution structures. , 2000, Biophysical journal.
[5] H. G. Petersen. Accuracy and efficiency of the particle mesh Ewald method , 1995 .
[6] Joachim Frank,et al. Structures of modified eEF2·80S ribosome complexes reveal the role of GTP hydrolysis in translocation , 2007, The EMBO journal.
[7] Holger Gohlke,et al. The Amber biomolecular simulation programs , 2005, J. Comput. Chem..
[8] Wolfgang Wintermeyer,et al. Structure of ratcheted ribosomes with tRNAs in hybrid states , 2008, Proceedings of the National Academy of Sciences.
[9] Wei Zhang,et al. GTPase activation of elongation factor EF‐Tu by the ribosome during decoding , 2009, The EMBO journal.
[10] A. Liljas,et al. Structure of a mutant EF-G reveals domain III and possibly the fusidic acid binding site. , 2000, Journal of molecular biology.
[11] Yong-Gui Gao,et al. The Crystal Structure of the Ribosome Bound to EF-Tu and Aminoacyl-tRNA , 2009, Science.
[12] Zigurts K. Majumdar,et al. The antibiotic viomycin traps the ribosome in an intermediate state of translocation , 2007, Nature Structural &Molecular Biology.
[13] W. L. Jorgensen,et al. Comparison of simple potential functions for simulating liquid water , 1983 .
[14] H. Berendsen,et al. ALGORITHMS FOR MACROMOLECULAR DYNAMICS AND CONSTRAINT DYNAMICS , 1977 .
[15] Steven Chu,et al. Fluctuations of transfer RNAs between classical and hybrid states. , 2007, Biophysical journal.
[16] P. Kollman,et al. A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules , 1995 .
[17] J Frank,et al. Visualization of elongation factor G on the Escherichia coli 70S ribosome: the mechanism of translocation. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[18] Jake M. Hofman,et al. Allosteric collaboration between elongation factor G and the ribosomal L1 stalk directs tRNA movements during translation , 2009, Proceedings of the National Academy of Sciences.
[19] P. Kollman,et al. A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules J. Am. Chem. Soc. 1995, 117, 5179−5197 , 1996 .
[20] J. Holton,et al. Structures of the Bacterial Ribosome at 3.5 Å Resolution , 2005, Science.
[21] T. Steitz,et al. The crystal structure of elongation factor G complexed with GDP, at 2.7 A resolution. , 1994, The EMBO journal.
[22] Taekjip Ha,et al. Spontaneous intersubunit rotation in single ribosomes. , 2008, Molecular cell.
[23] Klaus Schulten,et al. The role of L1 stalk-tRNA interaction in the ribosome elongation cycle. , 2010, Journal of molecular biology.
[24] Joachim Frank,et al. A ratchet-like inter-subunit reorganization of the ribosome during translocation , 2000, Nature.
[25] Nathan O'Connor,et al. Identification of two distinct hybrid state intermediates on the ribosome. , 2007, Molecular cell.
[26] Yong-Gui Gao,et al. The Structure of the Ribosome with Elongation Factor G Trapped in the Posttranslocational State , 2009, Science.
[27] A. Liljas,et al. Three‐dimensional structure of the ribosomal translocase: elongation factor G from Thermus thermophilus. , 1994, The EMBO journal.
[28] Leonardo G. Trabuco,et al. Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics. , 2008, Structure.
[29] Joachim Frank,et al. The process of mRNA–tRNA translocation , 2007, Proceedings of the National Academy of Sciences.
[30] Joachim Frank,et al. Locking and Unlocking of Ribosomal Motions , 2003, Cell.
[31] J. Frank,et al. Functional conformations of the L11-ribosomal RNA complex revealed by correlative analysis of cryo-EM and molecular dynamics simulations. , 2006, RNA.
[32] Klaus Schulten,et al. Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis , 2009, Proceedings of the National Academy of Sciences.
[33] James B. Munro,et al. A fast dynamic mode of the EF‐G‐bound ribosome , 2010, The EMBO journal.
[34] Joachim Frank,et al. EF-G-dependent GTP hydrolysis induces translocation accompanied by large conformational changes in the 70S ribosome , 1999, Nature Structural Biology.
[35] Scott M Stagg,et al. Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy , 2003, Nature Structural Biology.