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Theoretical determination of NMR parameters of metabolites and proteins

Abstract : The present work presents a theoretical study of the NMR spectra of biological molecules. In the first part, DFT calculations of the spin-Hamiltonian NMR parameters (chemical shifts and spin-spin coupling constants) for protons attached to carbon atoms have been performed for four prostate metabolites: putrescine, spermidine, spermine, and sarcosine, and three brain metabolites: acetate, alanine, and serine. A theoretical investigation, within the DFT approach, of the NMR parameters of metabolites has shown that the B3LYP/6-311++G** level of calculation is a good compromise between accuracy and costs. Contributions from solvent were evaluated using the PCM model, Boltzmann weighted isomer effects were calculated, and zero-point vibrational corrections were estimated using a second order perturbation approach. Comparison with experiment has demonstrated that all these effects are necessary to improve the agreement between calculated and experimental data. In the second part, we have presented a new model, BioShift, that allows the prediction of chemical shifts of different nuclei (H, N, C…) for biological molecules (proteins, DNA, RNA, polyamine …). It is simple, fast, and involves a limited number of parameters. Comparison with well-known sophisticated models designed especially for the prediction of chemical shifts of proteins showed that Bioshift is competitive with such models.
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Submitted on : Thursday, October 11, 2012 - 2:32:14 PM
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  • HAL Id : tel-00670018, version 2



Zeinab Harb. Theoretical determination of NMR parameters of metabolites and proteins. Other [cond-mat.other]. Université Claude Bernard - Lyon I, 2011. English. ⟨NNT : 2011LYO10185⟩. ⟨tel-00670018v2⟩



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