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Prediction of peak overlap in NMR spectra

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Abstract

Peak overlap is one of the major factors complicating the analysis of biomolecular NMR spectra. We present a general method for predicting the extent of peak overlap in multidimensional NMR spectra and its validation using both, experimental data sets and Monte Carlo simulation. The method is based on knowledge of the magnetization transfer pathways of the NMR experiments and chemical shift statistics from the Biological Magnetic Resonance Data Bank. Assuming a normal distribution with characteristic mean value and standard deviation for the chemical shift of each observable atom, an analytic expression was derived for the expected overlap probability of the cross peaks. The analytical approach was verified to agree with the average peak overlap in a large number of individual peak lists simulated using the same chemical shift statistics. The method was applied to eight proteins, including an intrinsically disordered one, for which the prediction results could be compared with the actual overlap based on the experimentally measured chemical shifts. The extent of overlap predicted using only statistical chemical shift information was in good agreement with the overlap that was observed when the measured shifts were used in the virtual spectrum, except for the intrinsically disordered protein. Since the spectral complexity of a protein NMR spectrum is a crucial factor for protein structure determination, analytical overlap prediction can be used to identify potentially difficult proteins before conducting NMR experiments. Overlap predictions can be tailored to particular classes of proteins by preparing statistics from corresponding protein databases. The method is also suitable for optimizing recording parameters and labeling schemes for NMR experiments and improving the reliability of automated spectra analysis and protein structure determination.

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Acknowledgments

We gratefully acknowledge financial support by the Lichtenberg program of the Volkswagen Foundation.

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Author notes

  1. Roland Schmucki

    Present address: F. Hoffmann-La Roche AG, Basel, Switzerland

Authors and Affiliations

  1. Center for Biomolecular Magnetic Resonance, Institute of Biophysical Chemistry, Frankfurt am Main, Germany

    Frederik Hefke, Roland Schmucki & Peter Güntert

  2. Frankfurt Institute for Advanced Studies, Goethe University Frankfurt am Main, Max-von-Laue-Str. 9, 60438, Frankfurt am Main, Germany

    Frederik Hefke, Roland Schmucki & Peter Güntert

Authors
  1. Frederik Hefke
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  2. Roland Schmucki
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  3. Peter Güntert
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Correspondence to Peter Güntert.

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Hefke, F., Schmucki, R. & Güntert, P. Prediction of peak overlap in NMR spectra. J Biomol NMR 56, 113–123 (2013). https://doi.org/10.1007/s10858-013-9727-9

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  • DOI: https://doi.org/10.1007/s10858-013-9727-9

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