Suppr超能文献

使用固态 R₁ρ 实验定量构象动力学。

Quantifying conformational dynamics using solid-state R₁ρ experiments.

机构信息

Department of Chemistry, Columbia University, 3000 Broadway Mailcode 3113, New York, NY 10027, United States.

出版信息

J Magn Reson. 2012 Sep;222:1-7. doi: 10.1016/j.jmr.2012.05.014. Epub 2012 May 29.

Abstract

We demonstrate the determination of quantitative rates of molecular reorientation in the solid state with rotating frame (R(1ρ)) relaxation measurements. Reorientation of the carbon chemical shift anisotropy (CSA) tensor was used to probe site-specific conformational exchange in a model system, d(6)-dimethyl sulfone (d(6)-DMS). The CSA as a probe of exchange has the advantage that it can still be utilized when there is no dipolar mechanism (i.e. no protons attached to the site of interest). Other works have presented R(1ρ) measurements as a general indicator of dynamics, but this study extracts quantitative rates of molecular reorientation from the R(1ρ) values. Some challenges of this technique include precise knowledge of sample temperature and determining the R(2)(0) contribution to the observed relaxation rate from interactions other than molecular reorientation, such as residual dipolar couplings or fast timescale dynamics; determination of this term is necessary in order to quantify the exchange rate due to covariance between the 2 terms. Low-temperature experiments measured an R(2)(0) value of 1.8±0.2s(-1) Allowing for an additional relaxation term (R(2)(0)), which was modeled as both temperature-dependent and temperature-independent, rates of molecular reorientation were extracted from field strength-dependent R(1ρ) measurements at four different temperatures and the activation energy was determined from these exchange rates. The activation energies determined were 74.7±4.3kJ/mol and 71.7±2.9kJ/mol for the temperature-independent and temperature-dependent R(2)(0) models respectively, in excellent agreement with literature values. The results of this study suggest important methodological considerations for the application of the method to more complicated systems such as proteins, such as the importance of deuterating samples and the need to make assumptions regarding the R(2)(0) contribution to relaxation.

摘要

我们通过旋转框架(R(1ρ))弛豫测量证明了固态中分子重取向的定量速率的测定。使用碳化学位移各向异性(CSA)张量的重取向来探测模型系统 d(6)-二甲亚砜(d(6)-DMS)中特定部位的构象交换。CSA 作为交换的探针具有这样的优势:当不存在偶极机制(即没有质子连接到感兴趣的部位)时,它仍然可以被利用。其他工作已经提出 R(1ρ)测量作为动力学的一般指标,但本研究从 R(1ρ)值中提取分子重取向的定量速率。该技术的一些挑战包括精确了解样品温度以及确定除分子重取向以外的相互作用(例如残余偶极耦合或快速时间尺度动力学)对观察到的弛豫率的 R(2)(0)贡献;由于这两个术语之间存在协方差,因此确定这个术语是量化由于交换引起的交换速率的必要条件。低温实验测量的 R(2)(0)值为 1.8±0.2s(-1),允许存在另外的弛豫项(R(2)(0)),该项被建模为温度相关和温度不相关,从四个不同温度的场强依赖性 R(1ρ)测量中提取分子重取向速率,并从这些交换速率确定活化能。根据这两个模型,确定的活化能分别为 74.7±4.3kJ/mol 和 71.7±2.9kJ/mol,与文献值非常吻合。这项研究的结果表明,对于将该方法应用于更复杂的系统(如蛋白质),如氘代样品的重要性和对弛豫的 R(2)(0)贡献的假设的需要,该方法的应用存在重要的方法考虑因素。

相似文献

1
Quantifying conformational dynamics using solid-state R₁ρ experiments.
J Magn Reson. 2012 Sep;222:1-7. doi: 10.1016/j.jmr.2012.05.014. Epub 2012 May 29.
2
Monitoring conformational dynamics with solid-state R 1rho experiments.
J Biomol NMR. 2009 Sep;45(1-2):5-8. doi: 10.1007/s10858-009-9346-7. Epub 2009 Jul 28.
4
Selective inversion investigations of slow molecular motion in solid state deuteron NMR spectroscopy.
Solid State Nucl Magn Reson. 1996 Apr;6(2):167-85. doi: 10.1016/0926-2040(95)01213-3.
5
Heteronuclear Adiabatic Relaxation Dispersion (HARD) for quantitative analysis of conformational dynamics in proteins.
J Magn Reson. 2012 Jun;219:75-82. doi: 10.1016/j.jmr.2012.03.024. Epub 2012 Apr 6.
7
Deuterium Rotating Frame NMR Relaxation Measurements in the Solid State under Static Conditions for Quantification of Dynamics.
Chemphyschem. 2019 Jan 21;20(2):333-342. doi: 10.1002/cphc.201800454. Epub 2018 Aug 21.

引用本文的文献

1
Strategies for acquisition of resonance assignment spectra of highly dynamic membrane proteins: a GPCR case study.
J Biomol NMR. 2023 Aug;77(4):191-202. doi: 10.1007/s10858-023-00421-8. Epub 2023 Jul 26.
2
Rotating Frame Relaxation in Magic Angle Spinning Solid State NMR, a Promising Tool for Characterizing Biopolymer Motion.
Chem Rev. 2022 Sep 28;122(18):14940-14953. doi: 10.1021/acs.chemrev.2c00442. Epub 2022 Sep 13.
3
Experimental Characterization of the Hepatitis B Virus Capsid Dynamics by Solid-State NMR.
Front Mol Biosci. 2022 Jan 3;8:807577. doi: 10.3389/fmolb.2021.807577. eCollection 2021.
4
Deuteron Chemical Exchange Saturation Transfer for the Detection of Slow Motions in Rotating Solids.
Front Mol Biosci. 2021 Jul 27;8:705572. doi: 10.3389/fmolb.2021.705572. eCollection 2021.
5
TmDOTP: An NMR-based thermometer for magic angle spinning NMR experiments.
J Magn Reson. 2019 Nov;308:106574. doi: 10.1016/j.jmr.2019.106574. Epub 2019 Aug 16.
7
Solid-state NMR reveals a comprehensive view of the dynamics of the flexible, disordered N-terminal domain of amyloid-β fibrils.
J Biol Chem. 2019 Apr 12;294(15):5840-5853. doi: 10.1074/jbc.RA118.006559. Epub 2019 Feb 8.
9
Microsecond Protein Dynamics from Combined Bloch-McConnell and Near-Rotary-Resonance R Relaxation-Dispersion MAS NMR.
Chemphyschem. 2019 Jan 21;20(2):276-284. doi: 10.1002/cphc.201800935. Epub 2018 Dec 20.
10
Conformational Dynamics in the Core of Human Y145Stop Prion Protein Amyloid Probed by Relaxation Dispersion NMR.
Chemphyschem. 2019 Jan 21;20(2):311-317. doi: 10.1002/cphc.201800779. Epub 2018 Nov 7.

本文引用的文献

2
Ultrahigh resolution protein structures using NMR chemical shift tensors.
Proc Natl Acad Sci U S A. 2011 Oct 11;108(41):16974-9. doi: 10.1073/pnas.1103728108. Epub 2011 Oct 3.
3
Site-specific measurement of slow motions in proteins.
J Am Chem Soc. 2011 Oct 26;133(42):16762-5. doi: 10.1021/ja206815h. Epub 2011 Oct 3.
6
Measurement of site-specific 13C spin-lattice relaxation in a crystalline protein.
J Am Chem Soc. 2010 Jun 23;132(24):8252-4. doi: 10.1021/ja102744b.
9
Characterization of slow conformational dynamics in solids: dipolar CODEX.
J Biomol NMR. 2009 Sep;45(1-2):227-32. doi: 10.1007/s10858-009-9353-8. Epub 2009 Aug 7.
10
Monitoring conformational dynamics with solid-state R 1rho experiments.
J Biomol NMR. 2009 Sep;45(1-2):5-8. doi: 10.1007/s10858-009-9346-7. Epub 2009 Jul 28.

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