6ZHB

3D electron diffraction structure of bovine insulin

6ZHB の概要

• エントリーDOI: 10.2210/pdb6zhb/pdb
• 分子名称: Insulin, ZINC ION (3 entities in total)
• 機能のキーワード: hormone, insulin family, carbohydrate metabolism, hormone-growth
• 由来する生物種: Bos taurus (cattle); 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 11552.55

構造登録者

Blum, T.,Housset, D.,Clabbers, M.T.B.,van Genderen, E.,Bacia-Verloop, M.,Zander, U.,McCarthy, A.A.,Schoehn, G.,Ling, W.L.,Abrahams, J.P. (登録日: 2020-06-22, 公開日: 2021-01-27, 最終更新日: 2024-11-13)

主引用文献

Blum, T.B.,Housset, D.,Clabbers, M.T.B.,van Genderen, E.,Bacia-Verloop, M.,Zander, U.,McCarthy, A.A.,Schoehn, G.,Ling, W.L.,Abrahams, J.P.
Statistically correcting dynamical electron scattering improves the refinement of protein nanocrystals, including charge refinement of coordinated metals.
Acta Crystallogr D Struct Biol, 77:75-85, 2021

PubMed Abstract: Electron diffraction allows protein structure determination when only nanosized crystals are available. Nevertheless, multiple elastic (or dynamical) scattering, which is prominent in electron diffraction, is a concern. Current methods for modeling dynamical scattering by multi-slice or Bloch wave approaches are not suitable for protein crystals because they are not designed to cope with large molecules. Here, dynamical scattering of nanocrystals of insulin, thermolysin and thaumatin was limited by collecting data from thin crystals. To accurately measure the weak diffraction signal from the few unit cells in the thin crystals, a low-noise hybrid pixel Timepix electron-counting detector was used. The remaining dynamical component was further reduced in refinement using a likelihood-based correction, which was introduced previously for analyzing electron diffraction data of small-molecule nanocrystals and was adapted here for protein crystals. The procedure is shown to notably improve the structural refinement, in one case allowing the location of solvent molecules. It also allowed refinement of the charge states of bound metal atoms, an important element in protein function, through B-factor analysis of the metal atoms and their ligands. These results clearly increase the value of macromolecular electron crystallography as a complementary structural biology technique.

PubMed: 33404527
DOI: 10.1107/S2059798320014540

実験手法

ELECTRON CRYSTALLOGRAPHY (3.25 Å)