4CPH

trans-divalent streptavidin with love-hate ligand 4

4CPH の概要

• エントリーDOI: 10.2210/pdb4cph/pdb
• 関連するPDBエントリー: 4CPE 4CPF 4CPI
• 分子名称: STREPTAVIDIN, 5-[(3aS,4S,6aR)-2-oxo-hexahydro-1H-thieno[3,4- d]imidazolidin-4-yl]-N'-{2,6-bis[4-(morpholine-4- sulfonyl)phenyl]phenyl}pentanehydrazide, ... (4 entities in total)
• 機能のキーワード: biotin binding protein, avidin, biotin, strain, biotinylated, steric clash, strained, hindered, force, ligand series, affinity
• 由来する生物種: STREPTOMYCES AVIDINII; 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 56182.61

構造登録者

Fairhead, M.,Shen, D.,Chan, L.K.M.,Lowe, E.D.,Donohoe, T.J.,Howarth, M. (登録日: 2014-02-06, 公開日: 2014-08-06, 最終更新日: 2023-12-20)

主引用文献

Fairhead, M.,Shen, D.,Chan, L.K.M.,Lowe, E.D.,Donohoe, T.J.,Howarth, M.
Love-Hate Ligands for High Resolution Analysis of Strain in Ultra-Stable Protein/Small Molecule Interaction.
Bioorg.Med.Chem., 22:5476-, 2014

PubMed Abstract: The pathway of ligand dissociation and how binding sites respond to force are not well understood for any macromolecule. Force effects on biological receptors have been studied through simulation or force spectroscopy, but not by high resolution structural experiments. To investigate this challenge, we took advantage of the extreme stability of the streptavidin-biotin interaction, a paradigm for understanding non-covalent binding as well as a ubiquitous research tool. We synthesized a series of biotin-conjugates having an unchanged strong-binding biotin moiety, along with pincer-like arms designed to clash with the protein surface: 'Love-Hate ligands'. The Love-Hate ligands contained various 2,6-di-ortho aryl groups, installed using Suzuki coupling as the last synthetic step, making the steric repulsion highly modular. We determined binding affinity, as well as solving 1.1-1.6Å resolution crystal structures of streptavidin bound to Love-Hate ligands. Striking distortion of streptavidin's binding contacts was found for these complexes. Hydrogen bonds to biotin's ureido and thiophene rings were preserved for all the ligands, but biotin's valeryl tail was distorted from the classic conformation. Streptavidin's L3/4 loop, normally forming multiple energetically-important hydrogen bonds to biotin, was forced away by clashes with Love-Hate ligands, but Ser45 from L3/4 could adapt to hydrogen-bond to a different part of the ligand. This approach of preparing conflicted ligands represents a direct way to visualize strained biological interactions and test protein plasticity.

PubMed: 25128469
DOI: 10.1016/J.BMC.2014.07.029

実験手法

X-RAY DIFFRACTION (1.64 Å)