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长波长天然单波长反常散射法相位测定:机遇与挑战

Long-wavelength native-SAD phasing: opportunities and challenges.

作者信息

Basu Shibom, Olieric Vincent, Leonarski Filip, Matsugaki Naohiro, Kawano Yoshiaki, Takashi Tomizaki, Huang Chia-Ying, Yamada Yusuke, Vera Laura, Olieric Natacha, Basquin Jerome, Wojdyla Justyna A, Bunk Oliver, Diederichs Kay, Yamamoto Masaki, Wang Meitian

机构信息

Swiss Light Source, Paul Scherrer Institut, Villigen PSI, 5232, Switzerland.

Structural Biology Research Center, Photon Factory, Institute of Materials Structure Science, High Energy Accelerator Research Organization, Tsukuba, 305-0801, Japan.

出版信息

IUCrJ. 2019 Apr 1;6(Pt 3):373-386. doi: 10.1107/S2052252519002756. eCollection 2019 May 1.

DOI:10.1107/S2052252519002756
PMID:31098019
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6503925/
Abstract

Native single-wavelength anomalous dispersion (SAD) is an attractive experimental phasing technique as it exploits weak anomalous signals from intrinsic light scatterers ( < 20). The anomalous signal of sulfur in particular, is enhanced at long wavelengths, however the absorption of diffracted X-rays owing to the crystal, the sample support and air affects the recorded intensities. Thereby, the optimal measurable anomalous signals primarily depend on the counterplay of the absorption and the anomalous scattering factor at a given X-ray wavelength. Here, the benefit of using a wavelength of 2.7 over 1.9 Å is demonstrated for native-SAD phasing on a 266 kDa multiprotein-ligand tubulin complex (TR-TTL) and is applied in the structure determination of an 86 kDa helicase Sen1 protein at beamline BL-1A of the KEK Photon Factory, Japan. Furthermore, X-ray absorption at long wavelengths was controlled by shaping a lysozyme crystal into spheres of defined thicknesses using a deep-UV laser, and a systematic comparison between wavelengths of 2.7 and 3.3 Å is reported for native SAD. The potential of laser-shaping technology and other challenges for an optimized native-SAD experiment at wavelengths >3 Å are discussed.

摘要

天然单波长反常散射(SAD)是一种颇具吸引力的实验相位测定技术,因为它利用了来自固有光散射体的微弱反常信号(<20)。特别是硫的反常信号在长波长处增强,然而,由于晶体、样品支撑物和空气对衍射X射线的吸收会影响记录的强度。因此,最佳可测量反常信号主要取决于在给定X射线波长下吸收与反常散射因子之间的相互作用。在此,展示了在266 kDa多蛋白-配体微管蛋白复合物(TR-TTL)上进行天然SAD相位测定时,使用2.7 Å波长优于1.9 Å波长的优势,并将其应用于日本高能加速器研究机构(KEK)光子工厂BL-1A光束线上86 kDa解旋酶Sen1蛋白的结构测定。此外,通过使用深紫外激光将溶菌酶晶体加工成具有特定厚度的球体来控制长波长处的X射线吸收,并报告了针对天然SAD在2.7 Å和3.3 Å波长之间的系统比较。讨论了激光成型技术的潜力以及在波长>3 Å时优化天然SAD实验面临的其他挑战。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/e4fb50ab13df/m-06-00373-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/fa59557ecaf2/m-06-00373-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/67b2246c7f7e/m-06-00373-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/23c664ff1d5c/m-06-00373-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/3c95cf838f77/m-06-00373-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/e0dabfb9eb5e/m-06-00373-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/e4fb50ab13df/m-06-00373-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/fa59557ecaf2/m-06-00373-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/67b2246c7f7e/m-06-00373-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/23c664ff1d5c/m-06-00373-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/3c95cf838f77/m-06-00373-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/e0dabfb9eb5e/m-06-00373-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cd27/6503925/e4fb50ab13df/m-06-00373-fig6.jpg

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2
Fast and accurate data collection for macromolecular crystallography using the JUNGFRAU detector.使用 JUNGFRAU 探测器实现大分子晶体学的快速、精确数据采集。
Nat Methods. 2018 Oct;15(10):799-804. doi: 10.1038/s41592-018-0143-7. Epub 2018 Oct 1.
3
In situ serial crystallography for rapid de novo membrane protein structure determination.
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J Synchrotron Radiat. 2025 Mar 1;32(Pt 2):304-314. doi: 10.1107/S1600577525000657. Epub 2025 Feb 18.
4
Useful experimental aspects of small-wedge synchrotron crystallography for accurate structure analysis of protein molecules.用于蛋白质分子精确结构分析的小楔形同步加速器晶体学的有用实验方面。
Acta Crystallogr D Struct Biol. 2025 Jan 1;81(Pt 1):22-37. doi: 10.1107/S2059798324011987.
5
VMXm - A sub-micron focus macromolecular crystallography beamline at Diamond Light Source.VMXm——钻石光源的一条亚微米聚焦大分子晶体学光束线。
J Synchrotron Radiat. 2024 Nov 1;31(Pt 6):1593-1608. doi: 10.1107/S1600577524009160. Epub 2024 Oct 30.
6
Experimental phasing opportunities for macromolecular crystallography at very long wavelengths.极长波长下大分子晶体学的实验相位测定机会。
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7
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