Structure of Pyrococcus horikoshii NikR: Nickel sensing and implications for the regulation of DNA recognition

Peter T. Chivers, Tahir H. Tahirov

Research output: Contribution to journalArticle

65 Citations (Scopus)

Abstract

The Pyrococcus horikoshii OT3 genome contains a gene (PH0601 or nikR) encoding a protein (PhNikR) that shares 33.8% amino acid sequence identity with Escherichia coli nickel responsive repressor NikR (EcNikR), including many residues that are functionally important in the E. coli ortholog. We succeeded in crystallization and structural characterization of PhNikR in the apo form and two nickel bound forms that exhibit different conformations, open and closed. Moreover, we have identified a putative "low-affinity" nickel-binding pocket in the closed form. This binding site has unusual nickel coordination and exhibits high sensitivity to phosphate in the crystal structure. Analysis of the PhNikR structures and structure-based mutational studies with EcNikR reveals a plausible mechanism of nickel-dependent promoter recognition by the NikR family of proteins.

Original languageEnglish (US)
Pages (from-to)597-607
Number of pages11
JournalJournal of Molecular Biology
Volume348
Issue number3
DOIs
StatePublished - May 6 2005

Fingerprint

Pyrococcus horikoshii
Nickel
DNA
Escherichia coli
Crystallization
Amino Acid Sequence
Proteins
Phosphates
Binding Sites
Genome

Keywords

  • Crystal structure
  • NikR
  • Pyrococcus horikoshii
  • Transcription
  • nickel responsive repressor

ASJC Scopus subject areas

  • Structural Biology
  • Molecular Biology

Cite this

Structure of Pyrococcus horikoshii NikR : Nickel sensing and implications for the regulation of DNA recognition. / Chivers, Peter T.; Tahirov, Tahir H.

In: Journal of Molecular Biology, Vol. 348, No. 3, 06.05.2005, p. 597-607.

Research output: Contribution to journalArticle

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