8SP1

Chimeric ETS-domain of murine PU.1 harboring the corresponding beta-strand 3 (S3) residues from murine Ets-1 in complex with d(AATAAGCGIAAGTGGG)

8SP1 の概要

• エントリーDOI: 10.2210/pdb8sp1/pdb
• 関連するPDBエントリー: 8SMH 8SMJ
• 分子名称: DNA (5'-D(*AP*AP*TP*AP*AP*GP*CP*GP*IP*AP*AP*GP*TP*GP*GP*G)-3'), DNA (5'-D(*TP*CP*CP*CP*AP*CP*TP*TP*CP*CP*GP*CP*TP*TP*AP*T)-3'), Transcription factor PU.1, ... (5 entities in total)
• 機能のキーワード: transcription factor, protein-dna complex, ets family, ets, pu.1, transcription-dna complex, transcription, transcription/dna
• 由来する生物種: Mus musculus (house mouse); 詳細
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 21437.01

構造登録者

Terrell, J.R.,Poon, G.M.K. (登録日: 2023-05-01, 公開日: 2023-11-29, 最終更新日: 2024-01-17)

主引用文献

Vernon, T.N.,Terrell, J.R.,Albrecht, A.V.,Germann, M.W.,Wilson, W.D.,Poon, G.M.K.
Dissection of integrated readout reveals the structural thermodynamics of DNA selection by transcription factors.
Structure, 32:83-96.e4, 2024

PubMed Abstract: Nucleobases such as inosine have been extensively utilized to map direct contacts by proteins in the DNA groove. Their deployment as targeted probes of dynamics and hydration, which are dominant thermodynamic drivers of affinity and specificity, has been limited by a paucity of suitable experimental models. We report a joint crystallographic, thermodynamic, and computational study of the bidentate complex of the arginine side chain with a Watson-Crick guanine (Arg×GC), a highly specific configuration adopted by major transcription factors throughout the eukaryotic branches in the Tree of Life. Using the ETS-family factor PU.1 as a high-resolution structural framework, inosine substitution for guanine resulted in a sharp dissection of conformational dynamics and hydration and elucidated their role in the DNA specificity of PU.1. Our work suggests an under-exploited utility of modified nucleobases in untangling the structural thermodynamics of interactions, such as the Arg×GC motif, where direct and indirect readout are tightly integrated.

PubMed: 38042148
DOI: 10.1016/j.str.2023.11.003

実験手法

X-RAY DIFFRACTION (1.62 Å)