Curation Information

The metal- and DNA-binding activities of Helicobacter pylori NikR.;Abraham LO, Li Y, Zamble DB;Journal of inorganic biochemistry 2006 May; 100(5-6):1005-14 [16343630]
NikR [O25896, view regulon]
Reported TF sp.
Helicobacter pylori 26695
Reported site sp.
Helicobacter pylori 26695
Created by
Matthew Coveyou
Curation notes

Experimental Process

Based upon a previous study, an AT-rich palindromic sequence was identified in the operator site required for nickel-dependent regulation of the urease genes. EMSA of 102-bp oligonucleotide probes containing the palindromic sequence showed NikR bound them with specificity and in a nickel-dependent manner. For 60-bp probes with the palindrome flanked by 19-22 bases, binding was comparable to the larger probe. However, 43-bp probes with 12-base flanking regions showed reduced binding. DNAse I footprinting demonstrated NikR protected the palindrome sequence, and also showed protection of some DNAse cut sites 16 bases upstream.

Transcription Factor Binding Sites


Gene Regulation

Regulated genes for each binding site are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation. For each indvidual site, experimental techniques used to determine the site are also given.

Site sequence Regulated genes Gene diagram Experimental techniques TF function TF type
... ... HP0073 ureB
Experimental technique details DNAse footprinting (ECO:0005631) - Experimental technique details EMSA (ECO:0001807) - activator tetramer