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Lipari–Szabo mapping: A graphical approach to Lipari–Szabo analysis of NMR relaxation data using reduced spectral density mapping

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Abstract

In this paper, we explore connections between the Lipari–Szabo formalism and reduced spectral density mapping, and show how spectral density estimates can be associated with Lipari–Szabo parameters via a simple geometric construction which we call Lipari–Szabo mapping. This relationship can be used to estimate Lipari–Szabo parameters from spectral density estimates without the need for nonlinear optimization, and to perform `model selection' in a graphical manner. The Lipari–Szabo map also provides insight into the Lipari–Szabo model, and allows us to determine when a given set of experimental spectral densities are inconsistent with the Lipari–Szabo formalism. Practical applications of Lipari–Szabo mapping in conjunction with more traditional analysis methods are discussed.

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References

  • Andrec, M., Inman, K.G., Weber, D.J., Levy, R.M. and Montelione, G.T. (2000) J. Magn. Reson., in press.

  • Andrec, M., Montelione, G.T. and Levy, R.M. (1999) J. Magn.Reson., 139, 408–421.

    Google Scholar 

  • Bevington, P.R. (1969) Data Reduction and Error Analysis in the Physical Sciences, McGraw-Hill, New York, NY.

    Google Scholar 

  • Brooks, C.L., Karplus, M. and Pettit, B.M. (1988) Proteins: A Theoretical Perspective of Dynamics, Structure, and Thermodynamics, John Wiley & Sons, New York, NY.

    Google Scholar 

  • Brüschweiler, R., Liao, X. and Wright, P.E. (1995) Science, 268, 886–889.

    Google Scholar 

  • Cavanagh, J., Fairbrother, W.J., Palmer, A.G. and Skelton, N.J. (1996) Protein NMR Spectroscopy: Principles and Practice, Academic Press, San Diego, CA.

    Google Scholar 

  • Clore, G.M., Gronenborn, A.M., Szabo, A. and Tjandra, N. (1998) J. Am. Chem. Soc., 120, 4889–4890.

    Google Scholar 

  • Clore, G.M., Szabo, A., Bax, A., Kay, L.E., Driscoll, P.C. and Gronenborn, A.M. (1990) J. Am. Chem. Soc., 112, 4989–4991.

    Google Scholar 

  • Craig, C.C. (1936) Ann. Math. Stat., 7, 1–15.

    Google Scholar 

  • Daragan, V.A. and Mayo, K.H. (1997) Prog. NMR Spectrosc., 31, 63–105.

    Google Scholar 

  • Farrow, N.A., Zhang, O., Szabo, A., Torchia, D.A. and Kay, L.E. (1995) J. Biomol. NMR, 6, 153–162.

    Google Scholar 

  • Feng, W., Tejero, R., Zimmerman, D.E., Inouye, M. and Montelione, G.T. (1998) Biochemistry, 37, 10881–10896.

    Google Scholar 

  • Fischer, M.W.F. Majumdar, A. and Zuiderweg, E.R.P. (1998) Prog. NMR Spectrosc., 33, 207–272.

    Google Scholar 

  • Fushman, D., Weisemann, R., Thüring, H. and Rüterjans, H. (1994) J. Biomol. NMR, 4, 61–78.

    Google Scholar 

  • Guenneugues, M., Gilquin, B., Wolff, N., Ménez, A. and Zinn-Justin, S. (1999) J. Biomol. NMR, 14, 47–66.

    Google Scholar 

  • Ishima, R. and Nagayama, K. (1995) J. Magn. Reson., B108, 73–76.

    Google Scholar 

  • Ishima, R., Yamasaki, K. and Nagayama, K. (1995) J. Biomol. NMR, 6, 423–426.

    Google Scholar 

  • Jardetzky, O. (1996) Prog. Biophys. Mol. Biol., 65, 171–219.

    Google Scholar 

  • Jin, D., Andrec, M., Montelione, G.T. and Levy, R.M. (1998) J. Biomol. NMR, 12, 471–492.

    Google Scholar 

  • Jin, D., Figueirido, F., Montelione, G.T. and Levy, R.M. (1997) J. Am. Chem. Soc., 119, 6923–6924.

    Google Scholar 

  • Lee, L.K., Rance, M., Chazin, W.J. and Palmer, A.G., III (1997) J. Biomol. NMR, 9, 287–298.

    Google Scholar 

  • Lefèvre, J.-F., Dayie, K.T., Peng, J.W. and Wagner, G. (1996) Biochemistry, 35, 2674–2686.

    Google Scholar 

  • Levy, R.M. and Keepers, J. (1986) Commun. Mol. Cell. Biophys., 3, 273–295.

    Google Scholar 

  • Lipari, G. and Szabo, A. (1982) J. Am. Chem. Soc., 104, 4546–4559.

    Google Scholar 

  • Losonczi, J.A. and Prestegard, J.H. (1998) Biochemistry, 37, 706–716.

    Google Scholar 

  • Mandel, A.M., Akke, M. and Palmer, A.G., III (1995) J. Mol. Biol., 246, 144–163.

    Google Scholar 

  • McCammon, J.A. and Harvey, S. (1987) Dynamics of Proteins and Nucleic Acids, Cambridge University Press, Cambridge.

    Google Scholar 

  • Ó Ruanaidh, J.J.K. and Fitzgerald, W.J. (1996) Numerical Bayesian Methods Applied to Signal Processing, Springer-Verlag, New York, NY.

    Google Scholar 

  • Palmer, A.G., III (1997) Curr. Opin. Struct. Biol., 7, 732–737.

    Google Scholar 

  • Peng, J.W. and Wagner, G. (1992a) Biochemistry, 31, 8571–8586.

    Google Scholar 

  • Peng, J.W. and Wagner, G. (1992b) J. Magn. Reson., 98, 308–332.

    Google Scholar 

  • Peng, J.W. and Wagner, G. (1995) Biochemistry, 34, 16733–16752.

    Google Scholar 

  • Press, W.H., Teukolsky, S.A., Vetterling, W.T. and Flannery, B.P. (1992) Numerical Recipes in C: The Art of Scientific Computing, Cambridge University Press, Cambridge.

    Google Scholar 

  • Schurr, J.M., Babcock, H.P. and Fujimoto, B.S. (1994) J. Magn.Reson., B105, 211–224.

    Google Scholar 

  • Sivia, D.S. (1996) Data Analysis: A Bayesian Tutorial, Oxford University Press, Oxford.

    Google Scholar 

  • Stephenson, D.S. (1988) Prog. NMR Spectrosc., 20, 515–626.

    Google Scholar 

  • Tarantola, A. (1987) Inverse Problem Theory: Methods for Data Fitting and Model Parameter Estimation, Elsevier, Amsterdam.

    Google Scholar 

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Andrec, M., Montelione, G.T. & Levy, R.M. Lipari–Szabo mapping: A graphical approach to Lipari–Szabo analysis of NMR relaxation data using reduced spectral density mapping. J Biomol NMR 18, 83–100 (2000). https://doi.org/10.1023/A:1008302101116

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