6ZA7

Structure of the apo transcriptional repressor Atu1419 (VanR) from agrobacterium fabrum

6ZA7 の概要

• エントリーDOI: 10.2210/pdb6za7/pdb
• 分子名称: Transcriptional regulator, GntR family, ZINC ION, GLYCEROL, ... (6 entities in total)
• 機能のキーワード: repressor, transcription
• 由来する生物種: Agrobacterium fabrum str. C58
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 110460.92

構造登録者

Morera, S.,Vigouroux, A.,Legrand, P. (登録日: 2020-06-04, 公開日: 2020-12-02, 最終更新日: 2024-01-24)

主引用文献

Vigouroux, A.,Meyer, T.,Naretto, A.,Legrand, P.,Aumont-Nicaise, M.,Di Cicco, A.,Renoud, S.,Dore, J.,Levy, D.,Vial, L.,Lavire, C.,Morera, S.
Characterization of the first tetrameric transcription factor of the GntR superfamily with allosteric regulation from the bacterial pathogen Agrobacterium fabrum.
Nucleic Acids Res., 49:529-546, 2021

PubMed Abstract: A species-specific region, denoted SpG8-1b allowing hydroxycinnamic acids (HCAs) degradation is important for the transition between the two lifestyles (rhizospheric versus pathogenic) of the plant pathogen Agrobacterium fabrum. Indeed, HCAs can be either used as trophic resources and/or as induced-virulence molecules. The SpG8-1b region is regulated by two transcriptional regulators, namely, HcaR (Atu1422) and Atu1419. In contrast to HcaR, Atu1419 remains so far uncharacterized. The high-resolution crystal structures of two fortuitous citrate complexes, two DNA complexes and the apoform revealed that the tetrameric Atu1419 transcriptional regulator belongs to the VanR group of Pfam PF07729 subfamily of the large GntR superfamily. Until now, GntR regulators were described as dimers. Here, we showed that Atu1419 represses three genes of the HCAs catabolic pathway. We characterized both the effector and DNA binding sites and identified key nucleotides in the target palindrome. From promoter activity measurement using defective gene mutants, structural analysis and gel-shift assays, we propose N5,N10-methylenetetrahydrofolate as the effector molecule, which is not a direct product/substrate of the HCA degradation pathway. The Zn2+ ion present in the effector domain has both a structural and regulatory role. Overall, our work shed light on the allosteric mechanism of transcription employed by this GntR repressor.

PubMed: 33313837
DOI: 10.1093/nar/gkaa1181

実験手法

X-RAY DIFFRACTION (2.34 Å)