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Acta Crystallogr F Struct Biol Commun. 2019 Nov 1;75(Pt 11):687-696. doi: 10.1107/S2053230X19013189. Epub 2019 Nov 5.
2
Multiple role of hydrophobicity of tryptophan-108 in chicken lysozyme: structural stability, saccharide binding ability, and abnormal pKa of glutamic acid-35.色氨酸-108的疏水性在鸡溶菌酶中的多重作用:结构稳定性、糖类结合能力及谷氨酸-35的异常pKa值
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Lysozyme: a model enzyme in protein crystallography.溶菌酶:蛋白质晶体学中的一种模型酶。
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Hydration, mobility and accessibility of lysozyme: structures of a pH 6.5 orthorhombic form and its low-humidity variant and a comparative study involving 20 crystallographically independent molecules.溶菌酶的水合作用、流动性及可及性:pH 6.5正交晶系形式及其低湿度变体的结构以及一项涉及20个晶体学独立分子的比较研究
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Effects of protein-crystal hydration and temperature on side-chain conformational heterogeneity in monoclinic lysozyme crystals.蛋白晶体水合作用和温度对溶菌酶单斜晶体侧链构象不均一性的影响。
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ID30B - a versatile beamline for macromolecular crystallography experiments at the ESRF.ID30B——欧洲同步辐射装置上用于大分子晶体学实验的多功能光束线。
J Synchrotron Radiat. 2018 Jul 1;25(Pt 4):1249-1260. doi: 10.1107/S1600577518007166. Epub 2018 Jun 27.
2
Orthorhombic lysozyme crystallization at acidic pH values driven by phosphate binding.正交溶菌酶在磷酸盐结合驱动下在酸性 pH 值下的结晶。
Acta Crystallogr D Struct Biol. 2018 May 1;74(Pt 5):480-489. doi: 10.1107/S205979831800517X. Epub 2018 Apr 27.
3
Effects of protein-crystal hydration and temperature on side-chain conformational heterogeneity in monoclinic lysozyme crystals.蛋白晶体水合作用和温度对溶菌酶单斜晶体侧链构象不均一性的影响。
Acta Crystallogr D Struct Biol. 2018 Apr 1;74(Pt 4):264-278. doi: 10.1107/S2059798318000207. Epub 2018 Apr 3.
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Selenourea: a convenient phasing vehicle for macromolecular X-ray crystal structures.硒脲:一种用于大分子 X 射线晶体结构的方便的相分析试剂。
Sci Rep. 2016 Nov 14;6:37123. doi: 10.1038/srep37123.
5
Effect on catalysis by replacement of catalytic residue from hen egg white lysozyme to Venerupis philippinarum lysozyme.将催化残基从鸡蛋白溶菌酶替换为菲律宾蛤仔溶菌酶对催化作用的影响。
Protein Sci. 2016 Sep;25(9):1637-47. doi: 10.1002/pro.2966. Epub 2016 Jun 28.
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Dali server update.大理服务器更新。
Nucleic Acids Res. 2016 Jul 8;44(W1):W351-5. doi: 10.1093/nar/gkw357. Epub 2016 Apr 29.
7
Characterization of heat induced spherulites of lysozyme reveals new insight on amyloid initiation.溶菌酶热诱导球晶的特性研究揭示了淀粉样纤维起始的新见解。
Sci Rep. 2016 Mar 1;6:22475. doi: 10.1038/srep22475.
8
Current trends in protein crystallization.蛋白质结晶的当前趋势。
Arch Biochem Biophys. 2016 Jul 15;602:3-11. doi: 10.1016/j.abb.2015.12.010. Epub 2015 Dec 31.
9
High-pressure protein crystallography of hen egg-white lysozyme.鸡蛋清溶菌酶的高压蛋白质晶体学
Acta Crystallogr D Biol Crystallogr. 2015 Apr;71(Pt 4):742-53. doi: 10.1107/S1399004715000292. Epub 2015 Mar 26.
10
: a computation tool to aid in the visualization and characterization of solvent channels in macromolecular crystals.一种有助于可视化和表征大分子晶体中溶剂通道的计算工具。
J Appl Crystallogr. 2014 Nov 28;47(Pt 6):2105-2108. doi: 10.1107/S160057671402281X. eCollection 2014 Dec 1.

从溶剂含量极低的晶体中获得的溶菌酶结构发生了重大构象变化。

Major conformational changes in the structure of lysozyme obtained from a crystal with a very low solvent content.

作者信息

Salinas-Garcia M Carmen, Plaza-Garrido Marina, Alba-Elena Daniel, Camara-Artigas Ana

机构信息

Department of Chemistry and Physics, Agrifood Campus of International Excellence (ceiA3) and CIAMBITAL, University of Almería, Carretera de Sacramento s/n, 04120 Almería, Spain.

出版信息

Acta Crystallogr F Struct Biol Commun. 2019 Nov 1;75(Pt 11):687-696. doi: 10.1107/S2053230X19013189. Epub 2019 Nov 5.

DOI:10.1107/S2053230X19013189
PMID:31702582
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6839823/
Abstract

A new crystal form of lysozyme with a very low solvent content (26.35%) has been obtained in the orthorhombic space group P222 (with unit-cell parameters a = 30.04, b = 51.68, c = 61.53 Å). The lysozyme structure obtained from these crystals does not show the typical overall fold. Instead, major conformational changes take place in some elements of the secondary structure and in the hydrophobic core of the protein. At the end of the central α-helix (α2), Glu35 is usually buried in the catalytic site and shows an abnormally high pK value, which is key to the activity of the enzyme. The high pK value of this glutamate residue is favoured by the hydrophobic environment, particularly by its neighbour Trp108, which is important for structural stability and saccharide binding. In this new structure, Trp108 shows a 90° rotation of its side chain, which results in the rearrangement of the hydrophobic core. Conformational changes also result in the exposure of Glu35 to the solvent, which impairs the catalytic site by increasing the distance between Glu35 and Asp52 and lowering the pK value of the glutamate. Altogether, this new lysozyme structure reveals major conformational changes in the hydrophobic core and catalytic site that might play a role in the folding and bactericidal function of the protein.

摘要

已在正交空间群P222(晶胞参数a = 30.04、b = 51.68、c = 61.53 Å)中获得了一种溶剂含量极低(26.35%)的溶菌酶新晶型。从这些晶体中获得的溶菌酶结构并未显示出典型的整体折叠。相反,二级结构的某些元件和蛋白质的疏水核心发生了主要的构象变化。在中央α螺旋(α2)的末端,Glu35通常埋藏在催化位点并显示出异常高的pK值,这是酶活性的关键。该谷氨酸残基的高pK值受疏水环境的青睐,特别是受其邻位Trp108的影响,Trp108对结构稳定性和糖类结合很重要。在这种新结构中,Trp108的侧链旋转了90°,这导致疏水核心的重排。构象变化还导致Glu35暴露于溶剂中,这通过增加Glu35与Asp52之间的距离并降低谷氨酸的pK值而损害了催化位点。总之,这种新的溶菌酶结构揭示了疏水核心和催化位点的主要构象变化,这些变化可能在蛋白质的折叠和杀菌功能中起作用。