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氨基酸的 NMR 晶体学。

NMR crystallography of amino acids.

机构信息

Institute of Organic Chemistry and Biochemistry, Czech Academy of Sciences, Flemingovo nám. 2, 160 00 Prague, Czech Republic; Department of Organic Chemistry, Faculty of Science, Charles University in Prague, Hlavova 2030, 128 40 Prague 2, Czech Republic.

Department of Inorganic Chemistry, Faculty of Science, Charles University in Prague, Hlavova 2030, 128 40 Prague 2, Czech Republic.

出版信息

Solid State Nucl Magn Reson. 2024 Apr;130:101921. doi: 10.1016/j.ssnmr.2024.101921. Epub 2024 Feb 19.

DOI:10.1016/j.ssnmr.2024.101921
PMID:38422809
Abstract

The development of NMR crystallography methods requires a reliable database of chemical shifts measured for systems with known crystal structure. We measured and assigned carbon and hydrogen chemical shifts of twenty solid natural amino acids of known polymorphic structure, meticulously determined using powder X-ray diffraction. We then correlated the experimental data with DFT-calculated isotropic shieldings. The small size of the unit cell of most amino acids allowed for advanced computations using various families of DFT functionals, including generalized gradient approximation (GGA), meta-GGA and hybrid DFT functionals. We tested several combinations of functionals for geometry optimizations and NMR calculations. For carbon shieldings, the widely used GGA functional PBE performed very well, although an improvement could be achieved by adding shielding corrections calculated for isolated molecules using a hybrid functional. For hydrogen nuclei, we observed the best performance for NMR calculations carried out with structures optimized at the hybrid DFT level. The high fidelity of the calculations made it possible to assign additional signals that could not be assigned based on experiments alone, for example signals of two non-equivalent molecules in the unit cell of some of the amino acids.

摘要

NMR 晶体学方法的发展需要一个可靠的化学位移数据库,这些化学位移是针对具有已知晶体结构的系统测量的。我们测量并分配了二十种已知多晶型结构的固态天然氨基酸的碳和氢化学位移,这些化学位移是使用粉末 X 射线衍射精确定量的。然后,我们将实验数据与 DFT 计算的各向同性屏蔽相关联。大多数氨基酸的晶胞体积较小,允许使用各种 DFT 泛函族(包括广义梯度近似(GGA)、meta-GGA 和杂化 DFT 泛函)进行高级计算。我们测试了几种泛函组合用于几何优化和 NMR 计算。对于碳屏蔽,广泛使用的 GGA 泛函 PBE 表现非常好,尽管通过添加使用杂化泛函计算的孤立分子屏蔽校正,可以获得更好的效果。对于氢核,我们观察到在杂化 DFT 水平上优化结构进行 NMR 计算的性能最佳。计算的高精度使得能够分配额外的信号,这些信号仅凭实验无法分配,例如某些氨基酸晶胞中两个非等效分子的信号。

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