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生物分子的振动动力学:多量子贡献

Vibrational Dynamics of Biological Molecules: Multi-quantum Contributions.

作者信息

Leu Bogdan M, Timothy Sage J, Zgierski Marek Z, Wyllie Graeme R A, Ellison Mary K, Robert Scheidt W, Sturhahn Wolfgang, Ercan Alp E, Durbin Stephen M

机构信息

Steacie Institute for Molecular Science, National Research Council of Canada, Ottawa, Ontario, Canada K1A OR6.

出版信息

J Phys Chem Solids. 2005 Dec;66(12):2250-2256. doi: 10.1016/j.jpcs.2005.09.075.

DOI:10.1016/j.jpcs.2005.09.075
PMID:16894397
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC1513645/
Abstract

High-resolution X-ray measurements near a nuclear resonance reveal the complete vibrational spectrum of the probe nucleus. Because of this, nuclear resonance vibrational spectroscopy (NRVS) is a uniquely quantitative probe of the vibrational dynamics of reactive iron sites in proteins and other complex molecules. Our measurements of vibrational fundamentals have revealed both frequencies and amplitudes of (57)Fe vibrations in proteins and model compounds. Information on the direction of Fe motion has also been obtained from measurements on oriented single crystals, and provides an essential test of normal mode predictions. Here, we report the observation of weaker two-quantum vibrational excitations (overtones and combinations) for compounds that mimic the active site of heme proteins. The predicted intensities depend strongly on the direction of Fe motion. We compare the observed features with predictions based on the observed fundamentals, using information on the direction of Fe motion obtained either from DFT predictions or from single crystal measurements. Two-quantum excitations may become a useful tool to identify the directions of the Fe oscillations when single crystals are not available.

摘要

在核共振附近进行的高分辨率X射线测量揭示了探针原子核的完整振动光谱。因此,核共振振动光谱(NRVS)是蛋白质和其他复杂分子中活性铁位点振动动力学的独特定量探针。我们对振动基频的测量揭示了蛋白质和模型化合物中(57)Fe振动的频率和振幅。通过对取向单晶的测量也获得了有关Fe运动方向的信息,这为正常模式预测提供了重要检验。在此,我们报告了对模拟血红素蛋白质活性位点的化合物中较弱的双量子振动激发(泛音和组合)的观测。预测强度强烈依赖于Fe运动的方向。我们使用从DFT预测或单晶测量中获得的有关Fe运动方向的信息,将观测到的特征与基于观测到的基频的预测进行比较。当没有单晶时,双量子激发可能会成为识别Fe振荡方向的有用工具。

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引用本文的文献

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Chem Rev. 2017 Oct 11;117(19):12532-12563. doi: 10.1021/acs.chemrev.7b00295. Epub 2017 Sep 18.
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Nuclear resonance vibrational spectra of five-coordinate imidazole-ligated iron(II) porphyrinates.五配位咪唑配体铁(II)卟啉的核共振振动光谱。
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Electronic structure and dynamics of nitrosyl porphyrins.氮氧卟啉的电子结构和动力学。
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本文引用的文献

1
Is bound carbonyl linear or bent in heme proteins? Evidence from resonance Raman and infrared spectroscopic data.血红素蛋白中结合的羰基是线性的还是弯曲的?来自共振拉曼光谱和红外光谱数据的证据。
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Combined nuclear-molecular resonance inelastic scattering of x rays.
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Quantitative vibrational dynamics of iron in nitrosyl porphyrins.亚硝酰基卟啉中铁的定量振动动力学
J Am Chem Soc. 2004 Apr 7;126(13):4211-27. doi: 10.1021/ja038526h.
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Proteins in action: the physics of structural fluctuations and conformational changes.蛋白质的作用:结构波动与构象变化的物理学
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Direct determination of the complete set of iron normal modes in a porphyrin-imidazole model for carbonmonoxy-heme proteins: [Fe(TPP)(CO)(1-MeIm)].直接测定一氧化碳血红素蛋白卟啉 - 咪唑模型[Fe(TPP)(CO)(1 - MeIm)]中铁正常模式的完整集合。
J Am Chem Soc. 2003 Jun 11;125(23):6927-36. doi: 10.1021/ja028219w.
6
Observation of Fe-H/D modes by nuclear resonant vibrational spectroscopy.通过核共振振动光谱法观测铁 - 氢/氘模式
J Am Chem Soc. 2003 Apr 9;125(14):4016-7. doi: 10.1021/ja028767+.
7
What vibrations tell us about proteins.振动能告诉我们关于蛋白质的哪些信息。
Q Rev Biophys. 2002 Nov;35(4):369-430. doi: 10.1017/s0033583502003815.
8
Iron normal mode dynamics in a porphyrin-imidazole model for deoxyheme proteins.用于脱氧血红素蛋白的卟啉-咪唑模型中的铁正常模式动力学。
Phys Rev E Stat Nonlin Soft Matter Phys. 2002 Nov;66(5 Pt 1):051904. doi: 10.1103/PhysRevE.66.051904. Epub 2002 Nov 12.
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Theoretical study of the discrimination between O(2) and CO by myoglobin.
J Inorg Biochem. 2002 Jul 25;91(1):101-15. doi: 10.1016/s0162-0134(02)00426-9.
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Vibrational dynamics of myoglobin determined by the phonon-assisted Mössbauer effect.
Phys Rev E Stat Nonlin Soft Matter Phys. 2002 May;65(5 Pt 1):051916. doi: 10.1103/PhysRevE.65.051916. Epub 2002 May 17.