Exploring Global Motions and Correlations in the Ribosome. Export

@article{citeulike:270308, abstract = {We studied slower global coupled motions of the ribosome with half a microsecond of coarse-grained molecular dynamics. A low resolution anharmonic network model that allows for the evolution of tertiary structure and long-scale sampling, was developed and parameterized. Most importantly, we find that functionally important movements of L7/L12 and L1 lateral stalks are anti-correlated. Other principal directions of motions include widening of the tRNA cleft and the rotation of the small subunit which occurs as one block and is in phase with the movement of L1 stalk. The effect of the dynamical correlation pattern on the elongation process is discussed. Small fluctuations of the 3' tRNA termini and anti-codon nucleotides show tight alignement of substrates for the reaction. Our model provides an efficient and reliable way to study the dynamics of large biomolecular systems composed of both proteins and nucleic acids.}, address = {University of California at San Diego.}, author = {Trylska, Joanna and Tozzini, Valentina and McCammon, J Andrew A.}, citeulike-article-id = {270308}, citeulike-linkout-0 = {http://dx.doi.org/10.1529/biophysj.104.058495}, citeulike-linkout-1 = {http://www.biophysj.org/cgi/content/abstract/89/3/1455}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/15951386}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=15951386}, day = {10}, doi = {10.1529/biophysj.104.058495}, issn = {0006-3495}, journal = {Biophys J}, keywords = {conformation\_sampling}, month = {June}, posted-at = {2005-09-29 06:13:59}, priority = {2}, title = {Exploring Global Motions and Correlations in the Ribosome.}, url = {http://dx.doi.org/10.1529/biophysj.104.058495}, year = {2005} }

TY - JOUR ID - citeulike:270308 L3 - citeulike-article-id:270308 N2 - We studied slower global coupled motions of the ribosome with half a microsecond of coarse-grained molecular dynamics. A low resolution anharmonic network model that allows for the evolution of tertiary structure and long-scale sampling, was developed and parameterized. Most importantly, we find that functionally important movements of L7/L12 and L1 lateral stalks are anti-correlated. Other principal directions of motions include widening of the tRNA cleft and the rotation of the small subunit which occurs as one block and is in phase with the movement of L1 stalk. The effect of the dynamical correlation pattern on the elongation process is discussed. Small fluctuations of the 3' tRNA termini and anti-codon nucleotides show tight alignement of substrates for the reaction. Our model provides an efficient and reliable way to study the dynamics of large biomolecular systems composed of both proteins and nucleic acids. JF - Biophys J SN - 0006-3495 AD - University of California at San Diego. TI - Exploring Global Motions and Correlations in the Ribosome. KW - conformation_sampling AU - Trylska, Joanna AU - Tozzini, Valentina AU - McCammon, J Andrew PY - 2005/06/10/ UR - http://dx.doi.org/10.1529/biophysj.104.058495 ER -