Curation Information

Characterization of the roles of NikR, a nickel-responsive pleiotropic autoregulator of Helicobacter pylori.;Contreras M, Thiberge JM, Mandrand-Berthelot MA, Labigne A;Molecular microbiology 2003 Aug; 49(4):947-63 [12890020]
NikR [O25896, view regulon]
Reported TF sp.
Helicobacter pylori SS1
Reported site sp.
Helicobacter pylori SS1
Created by
Matthew Coveyou
Curation notes
More recent publications refute the putative binding site reported here.

Experimental Process

RNA dot blots were used to identify a non-exhaustive series of genes whose expression was modified by nikR. Beta-gal assays confirmed the effects of nikR on these genes, including autoregulatory activity of the nikR gene (hp1338). EMSA demonstrated the affinity of nikR for the upstream region of its own gene, and a putative palindromic binding site was identified based on the binding site of the E. coli nikR homologue. Mutagenesis of this putative site, illustrated by beta-gal assays, abolished the autoregulatory effects of nikR.

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
... ... HP1338 HP1337 HP1339 HP1340 HP1341
Experimental technique details Beta-gal reporter assay - Experimental technique details EMSA (ECO:0001807) - Experimental technique details RNA dot blot (ECO:0001177) - Experimental technique details Site directed mutagenesis (ECO:0005667) - repressor tetramer