2DU9

crystal structure of the transcriptional factor from C.glutamicum

2DU9 の概要

• エントリーDOI: 10.2210/pdb2du9/pdb
• 分子名称: Predicted transcriptional regulators, (4S)-2-METHYL-2,4-PENTANEDIOL (3 entities in total)
• 機能のキーワード: winged helix-turn-helix, transcription
• 由来する生物種: Corynebacterium glutamicum ATCC 13032
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 14514.54

構造登録者

Gao, Y.,Yao, M.,Tanaka, I. (登録日: 2006-07-20, 公開日: 2007-07-24, 最終更新日: 2024-11-20)

主引用文献

Gao, Y.,Yao, M.,Itou, H.,Zhou, Y.,Tanaka, I.
The structures of transcription factor CGL2947 from Corynebacterium glutamicum in two crystal forms: A novel homodimer assembling and the implication for effector-binding mode
Protein Sci., 16:1878-1886, 2007

PubMed Abstract: Among the transcription factors, the helix-turn-helix (HTH) GntR family comprised of FadR, HutC, MocR, YtrA, AraR, and PlmA subfamilies regulates the most varied biological processes. Generally, proteins belonging to this family contain an N-terminal DNA-binding domain and a C-terminal effector-binding/oligomerization domain. The members of the YtrA subfamily are much shorter than other members of this family, with chain lengths of 120-130 residues with about 50 residues located in the C-terminal domain. Because of this length, the mode of dimerization and the ability to bind effectors by the C-terminal domain are puzzling. Here, we first report the structure of the transcription factor CGL2947 from Corynebacterium glutamicum, which belongs to the YtrA family. The monomer is composed of a DNA-binding domain containing a winged HTH motif in the N terminus and two helices (alpha4 and alpha5) with a fishhook-shaped arrangement in the C terminus. Helices alpha4 and alpha5 of two monomers intertwine together to form a novel homodimer assembly. The effector-accommodating pocket with 2-methyl-2,4-pentanediol (MPD) docked was located, and it was suggested to represent a novel mode of effector binding. The structures in two crystal forms (MPD-free and -bound in the proposed effector-binding pocket) were solved. The structural variations have implications regarding how the effector-induced conformational change modulates DNA affinity for YtrA family members.

PubMed: 17766384
DOI: 10.1110/ps.072976907

実験手法

X-RAY DIFFRACTION (2.28 Å)