3JXC

Crystal structure of the P22 c2 repressor protein in complex with synthetic operator 9T in the presence of Tl+

3JXC の概要

• エントリーDOI: 10.2210/pdb3jxc/pdb
• 関連するPDBエントリー: 3JXB 3JXD
• 分子名称: 5'-D(*CP*AP*TP*TP*TP*AP*AP*GP*AP*TP*AP*TP*CP*TP*TP*AP*AP*AP*TP*G)-3', Repressor protein C2, THALLIUM (I) ION, ... (4 entities in total)
• 機能のキーワード: protein-dna complex, dna-binding, repressor, transcription, transcription regulation, transcription regulator
• 由来する生物種: Enterobacteria phage P22 (Bacteriophage P22); 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 28068.92

構造登録者

Watkins, D.,Koudelka, G.B.,Williams, L.D. (登録日: 2009-09-18, 公開日: 2010-01-19, 最終更新日: 2023-09-06)

主引用文献

Watkins, D.,Mohan, S.,Koudelka, G.B.,Williams, L.D.
Sequence Recognition of DNA by Protein-Induced Conformational Transitions.
J.Mol.Biol., 396:1145-1164, 2010

PubMed Abstract: The binding of proteins to specific sequences of DNA is an important feature of virtually all DNA transactions. Proteins recognize specific DNA sequences using both direct readout (sensing types and positions of DNA functional groups) and indirect readout (sensing DNA conformation and deformability). Previously we showed that the P22 c2 repressor N-terminal domain (P22R NTD) forces the central non-contacted 5'-ATAT-3' sequence of the DNA operator into the B' state, a state known to affect DNA hydration, rigidity and bending. Usually the B' state, with a narrow minor groove and a spine of hydration, is reserved for A-tract DNA (TpA steps disrupt A-tracts). Here, we have co-crystallized P22R NTD with an operator containing a central 5'-ACGT-3' sequence in the non-contacted region. C.G base pairs have not previously been observed in the B' state and are thought to prevent it. However, P22R NTD induces a narrow minor groove and a spine of hydration to 5'-ACGT-3'. We observe that C.G base pairs have distinctive destabilizing and disordering effects on the spine of hydration. It appears that the reduced stability of the spine results in a higher energy cost for the B to B' transition. The differential effect of DNA sequence on the barrier to this transition allows the protein to sense the non-contacted DNA sequence.

PubMed: 20053356
DOI: 10.1016/j.jmb.2009.12.050

実験手法

X-RAY DIFFRACTION (1.9 Å)