Biophysics and Department of Chemistry, The University of Michigan, Ann Arbor, Michigan 48109-1055, USA.
J Phys Chem B. 2013 Jan 24;117(3):859-67. doi: 10.1021/jp311116p. Epub 2013 Jan 10.
There is considerable interest in determining amide-(15)N chemical shift anisotropy (CSA) tensors from biomolecules and understanding their variation for structural and dynamics studies using solution and solid-state NMR spectroscopy and also by quantum chemical calculations. Due to the difficulties associated with the measurement of CSA tensors from membrane proteins, NMR-based structural studies heavily relied on the CSA tensors determined from model systems, typically single crystals of model peptides. In the present study, the principal components of backbone amide-(15)N CSA tensors have been determined using density functional theory for a 16.7 kDa membrane-bound paramagnetic heme containing protein, cytochrome-b(5) (cytb(5)). All the calculations were performed by taking residues within 5 Å distance from the backbone amide-(15)N nucleus of interest. The calculated amide-(15)N CSA spans agree less well with our solution NMR data determined for an effective internuclear distance r(N-H) = 1.023 Å and a constant angle β = 18° that the least shielded component (δ(11)) makes with the N-H bond. The variation of amide-(15)N CSA span obtained using quantum chemical calculations is found to be smaller than that obtained from solution NMR measurements, whereas the trends of the variations are found to be in close agreement. We believe that the results reported in this study will be useful in studying the structure and dynamics of membrane proteins and heme-containing proteins, and also membrane-bound protein-protein complexes such as cytochromes-b5-P450.
人们对于从生物分子中确定酰胺-(15)N 化学位移各向异性 (CSA) 张量并了解其在使用溶液和固态 NMR 光谱学以及量子化学计算进行结构和动力学研究中的变化非常感兴趣。由于从膜蛋白测量 CSA 张量存在困难,基于 NMR 的结构研究主要依赖于从模型系统(通常是模型肽的单晶)确定的 CSA 张量。在本研究中,使用密度泛函理论确定了 16.7 kDa 膜结合的顺磁血红素含蛋白细胞色素-b(5) (cytb(5)) 中骨架酰胺-(15)N CSA 张量的主成分。所有计算都是通过取与感兴趣的骨架酰胺-(15)N 核 5 Å 范围内的残基进行的。计算出的酰胺-(15)N CSA 跨度与我们为有效核间距 r(N-H) = 1.023 Å 和恒定角 β = 18°确定的溶液 NMR 数据的吻合度较差,最屏蔽的分量(δ(11))与 N-H 键的夹角。使用量子化学计算获得的酰胺-(15)N CSA 跨度的变化发现比从溶液 NMR 测量获得的变化小,而变化的趋势发现非常吻合。我们相信,本研究报告的结果将有助于研究膜蛋白和血红素蛋白以及细胞色素-b5-P450 等膜结合蛋白-蛋白复合物的结构和动力学。