Density functional calculations of backbone 15N shielding tensors in beta-sheet and turn residues of protein G

Cai, Ling, Kosov, Daniel S., and Fushman, David (2011) Density functional calculations of backbone 15N shielding tensors in beta-sheet and turn residues of protein G. Journal of Biomolecular NMR, 50 (1). pp. 19-33.

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Abstract

We performed density functional calculations of backbone 15N shielding tensors in the regions of beta-sheet and turns of protein G. The calculations were carried out for all twenty-four beta-sheet residues and eight beta-turn residues in the protein GB3 and the results were compared with the available experimental data from solid-state and solution NMR measurements. Together with the alpha-helix data, our calculations cover 39 out of the 55 residues (or 71%) in GB3. The applicability of several computational models developed previously (Cai et al. in J Biomol NMR 45:245–253, 2009) to compute 15N shielding tensors of alpha-helical residues is assessed. We show that the proposed quantum chemical computational model is capable of predicting isotropic 15N chemical shifts for an entire protein that are in good correlation with experimental data. However, the individual components of the predicted 15N shielding tensor agree with experiment less well: the computed values show much larger spread than the experimental data, and there is a profound difference in the behavior of the tensor components for alpha-helix/turns and beta-sheet residues. We discuss possible reasons for this.

Item ID: 26163
Item Type: Article (Research - C1)
ISSN: 1573-5001
Keywords: nitrogen-15 shielding tensor, Ab initio calculation, density-functional calculation, beta-sheet, turns, protein G
Funders: National Institutes of Health (NIH)
Date Deposited: 29 Apr 2013 02:06
FoR Codes: 02 PHYSICAL SCIENCES > 0299 Other Physical Sciences > 029901 Biological Physics @ 50%
03 CHEMICAL SCIENCES > 0307 Theoretical and Computational Chemistry > 030701 Quantum Chemistry @ 50%
SEO Codes: 97 EXPANDING KNOWLEDGE > 970102 Expanding Knowledge in the Physical Sciences @ 100%
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