Methyl Dynamics of a Ca2+−Calmodulin−Peptide Complex from NMR/SRLS
| Autor: | Antonino Polimeno, Eva Meirovitch, Yu. E. Shapiro, Jack H. Freed |
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| Rok vydání: | 2010 |
| Předmět: |
Models
Molecular Magnetic Resonance Spectroscopy Protein Conformation media_common.quotation_subject Molecular Sequence Data Molecular Dynamics Simulation Asymmetry Molecular physics Article Molecular dynamics Protein structure Calmodulin Coordination Complexes Materials Chemistry Amino Acid Sequence Tensor Physical and Theoretical Chemistry media_common Coupling Chemistry Relaxation (NMR) Temperature Nuclear magnetic resonance spectroscopy Surfaces Coatings and Films Models Chemical Isotope Labeling Physical chemistry Calcium Spin Labels Spin Trapping Principal axis theorem |
| Zdroj: | The Journal of Physical Chemistry B. 115:354-365 |
| ISSN: | 1520-5207 1520-6106 |
| Popis: | We developed the slowly relaxing local structure (SRLS) approach for analyzing NMR spin relaxation in proteins. SRLS accounts for dynamical coupling between the tumbling of the protein and the local motion of the probe and for general tensorial properties. It is the generalization of the traditional model-free (MF) method, which does not account for mode-coupling and treats only simple tensorial properties. SRLS is applied herein to ²H relaxation of ¹³CDH₂ groups in the complex of Ca(2+)-calmodulin with the peptide smMLCKp. Literature data comprising ²H T₁ and T₂ acquired at 14.1 and 17.6 T, and 288, 295, 308, and 320 K, are used. We find that mode-coupling is a small effect for methyl dynamics. On the other hand, general tensorial properties are important. In particular, it is important to allow for the asymmetry of the local spatial restrictions, which can be represented in SRLS by a rhombic local ordering tensor with components S(0)(2) and S(2)(2). The principal axes frame of this tensor is obviously different from the axial frames of the magnetic tensors. Here, we find that -0.2 ≤ S(0)(2) ≤ 0.5 and -0.4 ≤ S(2)(2) ≤ 0. MF features a single "generalized" order parameter, S, confined to the 0-0.316 range; the local geometry is inherently simple. The parameter S is inaccurate, having absorbed unaccounted for effects, notably S(2)(2) ≠ 0. We find that the methionine methyls (the other methyl types) reorient with rates of 8.6 × 10⁹ to 21.4 × 10⁹ (0.67 × 10⁹ to 6.5 × 10⁹) 1/s. The corresponding activation energies are 10 (10-27) kJ/mol. By contrast, MF yields inaccurate effective local motional correlation times, τ(e), with nonphysical temperature dependence. Thus, the problematic S- and τ(e)-based MF picture of methyl dynamics has been replaced with an insightful physical picture based on a local ordering tensor related to structural features, and a local diffusion tensor that yields accurate activation energies. |
| Databáze: | OpenAIRE |
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