DNA Recognition by a σ54 Transcriptional Activator from Aquifex aeolicus

Vidangos, Natasha K.; Heideker, Johanna; Lyubimov, Artem; Lamers, Meindert; Huo, Yixin; Pelton, Jeffrey G.; Ton, Jimmy; Gralla, Jay; Berger, James; Wemmer, David E.

doi:10.1016/j.jmb.2014.08.009

Title: DNA Recognition by a σ⁵⁴ Transcriptional Activator from Aquifex aeolicus

Journal Article · Sat Aug 23 00:00:00 EDT 2014 · Journal of Molecular Biology

DOI:https://doi.org/10.1016/j.jmb.2014.08.009· OSTI ID:1257831

Vidangos, Natasha K. ^[1]; Heideker, Johanna ^[1]; Lyubimov, Artem ^[1]; Lamers, Meindert ^[1]; Huo, Yixin ^[2]; Pelton, Jeffrey G. ^[3]; Ton, Jimmy ^[1]; Gralla, Jay ^[2]; Berger, James ^[1]; Wemmer, David E. ^[4]

Univ. of California, Berkeley, CA (United States)
Univ. of California, Los Angeles, CA (United States)
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Univ. of California, Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Transcription initiation by bacterial σ 54 -polymerase requires the action of a transcriptional activator protein. Activators bind sequence-specifically upstream of the transcription initiation site via a DNA-binding domain (DBD). The structurally characterized DBDs from activators all belong to the Fis (factor for inversion stimulation) family of helix-turn-helix DNA-binding proteins. We report here structures of the free and DNA-bound forms of the DBD of NtrC4 (4DBD) from Aquifex aeolicus, a member of the NtrC family of σ 54 activators. Two NtrC4-binding sites were identified upstream (- 145 and - 85 bp) from the start of the lpxC gene, which is responsible for the first committed step in lipid A biosynthesis. This is the first experimental evidence for σ 54 regulation in lpxC expression. 4DBD was crystallized both without DNA and in complex with the - 145-binding site. The structures, together with biochemical data, indicate that NtrC4 binds to DNA in a manner that is similar to that of its close homolog, Fis. The greater sequence specificity for the binding of 4DBD relative to Fis seems to arise from a larger number of base-specific contacts contributing to affinity than for Fis.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Basic Energy Sciences (BES)

Grant/Contract Number:: AC02-05CH11231; FG05-86ER75281

OSTI ID:: 1257831

Alternate ID(s):: OSTI ID: 1407256

Journal Information:: Journal of Molecular Biology, Vol. 426, Issue 21; ISSN 0022-2836

Publisher:: ElsevierCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 10 works

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Title: DNA Recognition by a σ54 Transcriptional Activator from Aquifex aeolicus

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