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J Am Chem Soc. 2009 Dec 30;131(51):18314-26. doi: 10.1021/ja904716h.

Determination of the free energy landscape of alpha-synuclein using spin label nuclear magnetic resonance measurements.

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1
Department of Chemistry, University of Cambridge, Cambridge CB2 1EW, UK.

Abstract

Natively unfolded proteins present a challenge for structure determination because they populate highly heterogeneous ensembles of conformations. A useful source of structural information about these states is provided by paramagnetic relaxation enhancement measurements by nuclear magnetic resonance spectroscopy, from which long-range interatomic distances can be estimated. Here we describe a method for using such distances as restraints in molecular dynamics simulations to obtain a mapping of the free energy landscapes of natively unfolded proteins. We demonstrate the method in the case of alpha-synuclein and validate the results by a comparison with electron transfer measurements. Our findings indicate that our procedure provides an accurate estimate of the relative statistical weights of the different conformations populated by alpha-synuclein in its natively unfolded state.

PMID:
20028147
DOI:
10.1021/ja904716h
[Indexed for MEDLINE]
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