Hello Santhosh-- Sorry for the slow response- Thanksgiving was busy. >
> This is more of a conceptual question. > If we are generating synthetic RDC's [from a ensemble of conformations], how > do > we add noise to the system? [noise - observation errors] > > For NOE's the acceptable way is 10-25% Guassian noise. > > For RDC's I can think of two ways: > 1). Have a Guassian noise of of 0.26 HZ for NH and other bond vectors have > different errors. > > This was mentioned in the paper, Amplitudes of Protein Backbone Dynamics and > Correlated Motions in a Small R/β Protein: Correspondence of Dipolar Coupling > and Heteronuclear Relaxation Measurements. by Dr. Clore and Dr. Schwieters. > > Since the RDC's have different magnitudes, depending upon the orientation, > this > model can potentially add huge noises to some RDC's while not affecting some > others. > > 2). Use 10% Guassian noise of the magnitude of the RDC. > I have not seen this method used in the papers I have read. > > What is the accepted method of adding noise to synthetic data > Method 1 more closely corresponds to errors measured in experiments, so that would be the correct choice. best regards-- Charles _______________________________________________ Xplor-nih mailing list Xplor-nih@cake.cit.nih.gov http://cake.cit.nih.gov/mailman/listinfo/xplor-nih
