6ES3

Structure of CDX2-DNA(TCG)

6ES3 の概要

• エントリーDOI: 10.2210/pdb6es3/pdb
• 分子名称: DNA (5'-D(P*TP*TP*GP*TP*GP*TP*TP*TP*TP*AP*CP*GP*AP*CP*CP*TP*CP*C)-3'), Homeobox protein CDX-2, DNA (5'-D(P*GP*GP*AP*GP*GP*TP*CP*GP*TP*AP*AP*AP*AP*CP*AP*CP*AP*A)-3'), ... (4 entities in total)
• 機能のキーワード: homeodomain transcription factor, cdx2-dna complex, transcription
• 由来する生物種: Homo sapiens (Human); 詳細
• タンパク質・核酸の鎖数: 6
• 化学式量合計: 40115.20

構造登録者

Morgunova, E.,Yin, Y.,Jolma, A.,Popov, A.,Taipale, J. (登録日: 2017-10-19, 公開日: 2018-03-21, 最終更新日: 2024-01-17)

主引用文献

Morgunova, E.,Yin, Y.,Das, P.K.,Jolma, A.,Zhu, F.,Popov, A.,Xu, Y.,Nilsson, L.,Taipale, J.
Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima.
Elife, 7:-, 2018

PubMed Abstract: Most transcription factors (TFs) can bind to a population of sequences closely related to a single optimal site. However, some TFs can bind to two distinct sequences that represent two local optima in the Gibbs free energy of binding (ΔG). To determine the molecular mechanism behind this effect, we solved the structures of human HOXB13 and CDX2 bound to their two optimal DNA sequences, CAATAAA and TCGTAAA. Thermodynamic analyses by isothermal titration calorimetry revealed that both sites were bound with similar ΔG. However, the interaction with the CAA sequence was driven by change in enthalpy (ΔH), whereas the TCG site was bound with similar affinity due to smaller loss of entropy (ΔS). This thermodynamic mechanism that leads to at least two local optima likely affects many macromolecular interactions, as ΔG depends on two partially independent variables ΔH and ΔS according to the central equation of thermodynamics, ΔG = ΔH - TΔS.

PubMed: 29638214
DOI: 10.7554/eLife.32963

実験手法

X-RAY DIFFRACTION (2.57 Å)