8CMN

18mer DNA mimic Foldamer with an aliphatic linker in complex with Sac7d wild protein

これはPDB形式変換不可エントリーです。

8CMN の概要

• エントリーDOI: 10.2210/pdb8cmn/pdb
• 分子名称: DNA-binding protein 7d, N-[2-(2-methyl-1,3-dioxolan-2-yl)phenyl]-2-{[5-(trifluoromethyl)pyridin-2-yl]amino}pyridine-4-carboxamide (3 entities in total)
• 機能のキーワード: foldamer, dna mimic, dna binding protein, histone
• 由来する生物種: Sulfolobus acidocaldarius DSM 639; 詳細
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 12700.35

構造登録者

Deepak, D.,Corvaglia, V.,Wu, J.,Huc, I. (登録日: 2023-02-20, 公開日: 2023-07-19, 最終更新日: 2025-02-26)

主引用文献

Deepak, D.,Wu, J.,Corvaglia, V.,Allmendinger, L.,Scheckenbach, M.,Tinnefeld, P.,Huc, I.
DNA Mimic Foldamer Recognition of a Chromosomal Protein.
Angew.Chem.Int.Ed.Engl., 64:e202422958-e202422958, 2025

PubMed Abstract: Helical aromatic oligoamide foldamers bearing anionic side chains that mimic the overall shape and charge surface distribution of DNA were synthesized. Their interactions with chromosomal protein Sac7d, a non-sequence-selective DNA-binder that kinks DNA, were investigated by Surface Plasmon Resonance (SPR), Isothermal Titration Calorimetry (ITC), Circular Dichroism spectroscopy (CD), melting curve analysis, Atomic Force Microscopy (AFM), and Nuclear Magnetic Resonance (NMR), as well as by single crystal X-ray crystallography. The foldamers were shown to bind to Sac7d better than a DNA duplex of comparable length. The interaction is diastereoselective and takes place at the DNA binding site. Crystallography revealed that the DNA mimic foldamers have a binding mode of their own and that they can bind to Sac7d without being kinked.

PubMed: 39714421
DOI: 10.1002/anie.202422958

実験手法

X-RAY DIFFRACTION (2.65 Å)