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量子多体效应对肌红蛋白配体结合能的重整化。

Renormalization of myoglobin-ligand binding energetics by quantum many-body effects.

机构信息

Theory and Simulation of Condensed Matter, King's College London, London WC2R 2LS, United Kingdom.

出版信息

Proc Natl Acad Sci U S A. 2014 Apr 22;111(16):5790-5. doi: 10.1073/pnas.1322966111. Epub 2014 Apr 9.

Abstract

We carry out a first-principles atomistic study of the electronic mechanisms of ligand binding and discrimination in the myoglobin protein. Electronic correlation effects are taken into account using one of the most advanced methods currently available, namely a linear-scaling density functional theory (DFT) approach wherein the treatment of localized iron 3d electrons is further refined using dynamical mean-field theory. This combination of methods explicitly accounts for dynamical and multireference quantum physics, such as valence and spin fluctuations, of the 3d electrons, while treating a significant proportion of the protein (more than 1,000 atoms) with DFT. The computed electronic structure of the myoglobin complexes and the nature of the Fe-O2 bonding are validated against experimental spectroscopic observables. We elucidate and solve a long-standing problem related to the quantum-mechanical description of the respiration process, namely that DFT calculations predict a strong imbalance between O2 and CO binding, favoring the latter to an unphysically large extent. We show that the explicit inclusion of the many-body effects induced by the Hund's coupling mechanism results in the correct prediction of similar binding energies for oxy- and carbonmonoxymyoglobin.

摘要

我们对肌红蛋白蛋白中配体结合和识别的电子机制进行了第一性原理原子级研究。采用目前最先进的方法之一,即线性标度密度泛函理论(DFT)方法,考虑电子相关效应,其中进一步使用动态平均场理论细化了局部铁 3d 电子的处理。这种方法的组合明确考虑了 3d 电子的动力学和多参考量子物理学,例如价态和自旋涨落,同时用 DFT 处理蛋白质的很大一部分(超过 1000 个原子)。肌红蛋白复合物的计算电子结构和 Fe-O2 键的性质与实验光谱观测结果相吻合。我们阐明并解决了与呼吸过程量子力学描述有关的一个长期存在的问题,即 DFT 计算预测 O2 和 CO 结合之间存在强烈的不平衡,后者在很大程度上偏向于不自然的情况。我们表明,通过 Hund 耦合机制引起的多体效应的明确包含导致对氧合肌红蛋白和碳氧合肌红蛋白的相似结合能的正确预测。

相似文献

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Renormalization of myoglobin-ligand binding energetics by quantum many-body effects.量子多体效应对肌红蛋白配体结合能的重整化。
Proc Natl Acad Sci U S A. 2014 Apr 22;111(16):5790-5. doi: 10.1073/pnas.1322966111. Epub 2014 Apr 9.
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