Interaction of the C-terminal domain of the E. coli RNA polymerase α subunit with the UP element: Recognizing the backbone structure in the minor groove surface

Kazuhiro Yasuno, Toshio Yamazaki, Yoshiyuki Tanaka, Takashi S. Kodama, Akimasa Matsugami, Masato Katahira, Akira Ishihama, Yoshimasa Kyogoku

研究成果: Article査読

36 被引用数 (Scopus)

抄録

The C-terminal domain of the α-subunit of Escherichia coli RNA polymerase (αCTD) is responsible for transcriptional activation through interaction with both activator proteins and UP element DNA. Previously, we determined the solution structure of αCTD. Here, we investigated the interaction between αCTD and UP element DNA by NMR. DNA titration curves and intermolecular NOE measurements indicate that αCTD can bind to multiple sites on the UP element DNA. Unlike many transcription factors, αCTD does not have a strict base sequence requirement for binding. There is a good correlation between the strength of the interaction and the extent of intrinsic bending of the DNA oligomer estimated from the gel retardation assay. We propose that αCTD recognizes the backbone structure of DNA oligomers responsible for the intrinsic bending. Moreover, NMR studies and drug competition experiments indicated that αCTD interacts with the UP element on the minor groove side of the DNA. The C-terminal end of helix-1, the N-terminal end of helix-4, and the loop between helices 3 and 4 are used for the interaction. Based on these observations, we propose a model for the UP element-αCTD complex.

本文言語English
ページ(範囲)213-225
ページ数13
ジャーナルJournal of Molecular Biology
306
2
DOI
出版ステータスPublished - 2001 2 16

ASJC Scopus subject areas

  • 生物理学
  • 構造生物学
  • 分子生物学

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