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PubMed · 6560785

Phenylalanine transfer RNA: molecular dynamics simulation.

S C Harvey·M Prabhakaran·B Mao·J A McCammon
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Abstract

Yeast phenylalanine transfer RNA was subjected to a 12-picosecond molecular dynamics simulation. The principal features of the x-ray crystallographic analysis are reproduced, and the amplitudes of atomic displacements appear to be determined by the degree of exposure of the atoms. An analysis of the hydrogen bonds shows a correlation between the average length of a bond and the fluctuation in that length and reveals a rocking motion of bases in Watson-Crick guanine X cytosine base pairs. The in-plane motions of the bases are generally of larger amplitude than the out-of-plane motions, and there are correlations in the motions of adjacent bases.

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Chemical PhenomenaChemistryComputersCytosineGuanineHydrogen BondingNucleic Acid ConformationRNA, FungalRNA, Transfer, Amino AcylYeastsJournal ArticleResearch Support, Non-U.S. Gov'tResearch Support, U.S. Gov't, Non-P.H.S.Research Support, U.S. Gov't, P.H.S.

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S C Harvey, M Prabhakaran, B Mao, J A McCammon. 1984-03-16. Phenylalanine transfer RNA: molecular dynamics simulation.. https://doi.org/10.1126/science.6560785

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