Root Mean Square Deviation (Bioinformatics)
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Please note that the content of this book primarily consists of articles available from Wikipedia or other free sources online. The root mean square deviation (RMSD) is the measure of the average distance between the backbones of superimposed proteins. In the study of globular protein conformations, one customarily measures the similarity in three-dimensional structure by the RMSD of the C atomic coordinates after optimal rigid body superposition. When a dynamical system fluctuates about some well-defined average position the RMSD from the average over time can be referred to as the RMSF or ro...
Please note that the content of this book primarily consists of articles available from Wikipedia or other free sources online. The root mean square deviation (RMSD) is the measure of the average distance between the backbones of superimposed proteins. In the study of globular protein conformations, one customarily measures the similarity in three-dimensional structure by the RMSD of the C atomic coordinates after optimal rigid body superposition. When a dynamical system fluctuates about some well-defined average position the RMSD from the average over time can be referred to as the RMSF or root mean square fluctuation. The size of this fluctuation can be measured, eg using Mössbauer spectroscopy or nuclear magnetic resonance, and can provide important physical information. The Lindemann index is a method of placing the RMSF in the context of the parameters of the system.
