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Internal motion time scales of a small, highly stable and disulfide-rich protein: A 15N, 13C NMR and molecular dynamics study

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Abstract

Motions of the backbone CαHα and threonine CβHβ bonds of toxin α were investigated using natural abundance 13C NMR and molecular dynamics. Measurement of the 13C longitudinal and transverse relaxation rates employed ACCORDION techniques together with coherence selection by pulsed field gradients and sensitivity enhancement through the use of preservation of equivalent pathway, thus allowing a considerable reduction of the required spectrometer time. 13C R1, R2, 1H→13C NOE were obtained, as well as the variations of R1ρ(90° ) as a function of the rf field strength. These data were compared to those recorded by 1H and 15N NMR on a labelled sample of the toxin [Guenneugues et al. (1997) Biochemistry, 36, 16097–16108]. Both sets of data showed that picosecond to nanosecond time scale motions are well correlated to the secondary structure of the protein. This was further reinforced by the analysis of a 1 ns molecular dynamics simulation in water. Several CαHα and threonine CβHβ experimentally exhibit fast motions with a correlation time longer than 500 ps, that cannot be sampled along the simulation. In addition, the backbone exhibits motions on the microsecond to millisecond time scale on more than half of its length. Thus, toxin α, a highly stable protein (Tm=75 °C at acidic pH) containing 61 amino acids and 4 disulfides, shows important internal motions on time scales ranging from 0.1–0.5 ps, to 10–100 ps, 1 ns, and about 30 μs to 10 ms.

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Authors and Affiliations

  1. Département d'Ingénierie et d'Etudes des Protéines, CE Saclay, CEA, F-91191, Gif-sur-Yvette Cedex, France

    Marc Guenneugues, Bernard Gilquin, Nicolas Wolff, André Ménez & Sophie Zinn-Justin

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  1. Marc Guenneugues
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  2. Bernard Gilquin
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  3. Nicolas Wolff
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  4. André Ménez
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  5. Sophie Zinn-Justin
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Guenneugues, M., Gilquin, B., Wolff, N. et al. Internal motion time scales of a small, highly stable and disulfide-rich protein: A 15N, 13C NMR and molecular dynamics study. J Biomol NMR 14, 47–66 (1999). https://doi.org/10.1023/A:1008306602553

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