Suppr超能文献

基于X射线核共振数据的(亚硝酰)铁(II)四苯基卟啉中铁的正常模式动力学

Iron normal mode dynamics in (nitrosyl)iron(II)tetraphenylporphyrin from X-ray nuclear resonance data.

作者信息

Rai Brajesh K, Durbin Stephen M, Prohofsky Earl W, Sage J Timothy, Wyllie Graeme R A, Scheidt W Robert, Sturhahn Wolfgang, Alp E Ercan

机构信息

Department of Physics, Purdue University, West Lafayette, Indiana 47907, USA.

出版信息

Biophys J. 2002 Jun;82(6):2951-63. doi: 10.1016/S0006-3495(02)75636-1.

Abstract

The complete iron atom vibrational spectrum has been obtained by refinement of normal mode calculations to nuclear inelastic x-ray absorption data from (nitrosyl)iron(II)tetraphenylporphyrin, FeTPP(NO), a useful model for heme dynamics in myoglobin and other heme proteins. Nuclear resonance vibrational spectroscopy (NRVS) provides a direct measurement of the frequency and iron amplitude for all normal modes involving significant displacement of (57)Fe. The NRVS measurements on isotopically enriched single crystals permit determination of heme in-plane and out-of-plane modes. Excellent agreement between the calculated and experimental values of frequency and iron amplitude for each mode is achieved by a force-field refinement. Significantly, we find that the presence of the phenyl groups and the NO ligand leads to substantial mixing of the porphyrin core modes. This first picture of the entire iron vibrational density of states for a porphyrin compound provides an improved model for the role of iron atom dynamics in the biological functioning of heme proteins.

摘要

通过将正常模式计算细化至来自(亚硝酰基)铁(II)四苯基卟啉(FeTPP(NO))的核非弹性X射线吸收数据,已获得完整的铁原子振动光谱,FeTPP(NO)是肌红蛋白和其他血红素蛋白中血红素动力学的有用模型。核共振振动光谱(NRVS)直接测量了所有涉及(57)Fe显著位移的正常模式的频率和铁振幅。对同位素富集单晶的NRVS测量允许确定血红素的面内和面外模式。通过力场细化,实现了每种模式的频率和铁振幅的计算值与实验值之间的极佳一致性。重要的是,我们发现苯基和NO配体的存在导致卟啉核心模式的大量混合。这幅关于卟啉化合物整个铁振动态密度的首张图为铁原子动力学在血红素蛋白生物学功能中的作用提供了一个改进模型。

相似文献

1
Iron normal mode dynamics in (nitrosyl)iron(II)tetraphenylporphyrin from X-ray nuclear resonance data.
Biophys J. 2002 Jun;82(6):2951-63. doi: 10.1016/S0006-3495(02)75636-1.
2
Iron normal mode dynamics in a porphyrin-imidazole model for deoxyheme proteins.
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.
5
Axial ligand effects on vibrational dynamics of iron in heme carbonyl studied by nuclear resonance vibrational spectroscopy.
J Phys Chem B. 2012 Nov 29;116(47):13831-8. doi: 10.1021/jp304398g. Epub 2012 Nov 14.
6
Quantitative vibrational dynamics of iron in nitrosyl porphyrins.
J Am Chem Soc. 2004 Apr 7;126(13):4211-27. doi: 10.1021/ja038526h.
8
X-ray absorption spectroscopy of hemes and hemeproteins in solution: multiple scattering analysis.
Inorg Chem. 2008 Nov 3;47(21):9905-18. doi: 10.1021/ic800982a. Epub 2008 Oct 7.
10
Nuclear resonance vibrational spectroscopy--NRVS.
J Inorg Biochem. 2005 Jan;99(1):60-71. doi: 10.1016/j.jinorgbio.2004.11.004.

引用本文的文献

1
SciPhon: a data analysis software for nuclear resonant inelastic X-ray scattering with applications to Fe, Kr, Sn, Eu and Dy.
J Synchrotron Radiat. 2018 Sep 1;25(Pt 5):1581-1599. doi: 10.1107/S1600577518009487. Epub 2018 Aug 21.
2
What Can Be Learned from Nuclear Resonance Vibrational Spectroscopy: Vibrational Dynamics and Hemes.
Chem Rev. 2017 Oct 11;117(19):12532-12563. doi: 10.1021/acs.chemrev.7b00295. Epub 2017 Sep 18.
4
Effects of protein structure on iron-polypeptide vibrational dynamic coupling in cytochrome c.
Biochemistry. 2015 Feb 3;54(4):1064-76. doi: 10.1021/bi501430z. Epub 2015 Jan 16.
5
Predicting Nuclear Resonance Vibrational Spectra of [Fe(OEP)(NO)].
J Chem Theory Comput. 2012 Jan 10;8(1):214-223. doi: 10.1021/ct2006456. Epub 2011 Nov 29.
6
Nuclear resonance vibrational spectra of five-coordinate imidazole-ligated iron(II) porphyrinates.
Inorg Chem. 2012 Feb 6;51(3):1359-70. doi: 10.1021/ic201580v. Epub 2012 Jan 13.
7
Spectroscopic identification of reactive porphyrin motions.
J Chem Phys. 2011 Jul 7;135(1):015101. doi: 10.1063/1.3598473.
8
Electronic structure and dynamics of nitrosyl porphyrins.
Inorg Chem. 2010 Jul 19;49(14):6240-52. doi: 10.1021/ic100261b.
10
Probing vibrational anisotropy with nuclear resonance vibrational spectroscopy.
Angew Chem Int Ed Engl. 2010 Jun 14;49(26):4400-4. doi: 10.1002/anie.201000928.

本文引用的文献

1
Long-range reactive dynamics in myoglobin.
Phys Rev Lett. 2001 May 21;86(21):4966-9. doi: 10.1103/PhysRevLett.86.4966.
2
Nuclear forward scattering of synchrotron radiation by deoxymyoglobin.
Eur Biophys J. 2000;29(2):146-52. doi: 10.1007/s002490050260.
3
Phonon density of states measured by inelastic nuclear resonant scattering.
Phys Rev Lett. 1995 May 8;74(19):3832-3835. doi: 10.1103/PhysRevLett.74.3832.
4
Observation of nuclear resonant scattering accompanied by phonon excitation using synchrotron radiation.
Phys Rev Lett. 1995 May 8;74(19):3828-3831. doi: 10.1103/PhysRevLett.74.3828.
5
Real time observation of low frequency heme protein vibrations using femtosecond coherence spectroscopy.
Phys Rev Lett. 1994 Jan 10;72(2):301-304. doi: 10.1103/PhysRevLett.72.301.
7
Stereochemistry of cooperative effects in haemoglobin.
Nature. 1970 Nov 21;228(5273):726-39. doi: 10.1038/228726a0.
9
Vibrational characteristics of tetrapyrrolic macrocycles.
Annu Rev Phys Chem. 1992;43:465-96. doi: 10.1146/annurev.pc.43.100192.002341.

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍。

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

文档翻译

学术文献翻译模型,支持多种主流文档格式。

立即体验