Related ArticlesSliding and target location of DNA-binding proteins:an NMR view of the lac repressor system.
J Biomol NMR. 2013 Apr 9;
Authors: Loth K, Gnida M, Romanuka J, Kaptein R, Boelens R
Abstract
In non-specific lac headpiece-DNA complexes selective NMR line broadening is observed that strongly depends on length and composition of the DNA fragments. This broadening involves amide protons found in the non-specific lac-DNA structure to be interacting with the DNA phosphate backbone, and can be ascribed to DNA sliding of the protein along the DNA. This NMR exchange broadening has been used to estimate the 1D diffusion constant for sliding along non-specific DNA. The observed 1D diffusion constant of 4×10(-12)*cm(2)/s is two orders of magnitude smaller than derived from previous kinetic experiments, but falls in the range of values determined more recently using single molecule methods. This strongly supports the notion that sliding could play at most a minor role in the association kinetics of binding of lac repressor to lac operator and that other processes such as hopping and intersegment transfer contribute to facilitate the DNA recognition process.
PMID: 23568265 [PubMed - as supplied by publisher]
[NMR paper] NMR structures of salt-refolded forms of the 434-repressor DNA-binding domain in 6 M
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Biochemistry. 2004 Nov 9;43(44):13937-43
Authors: Pervushin K, Wider G, Iwai H, Wüthrich K
The N-terminal 63-residue fragment of the phage 434-repressor, 434(1-63), has a well-defined globular fold in H(2)O solution, and is unfolded in 6 M urea at pH 7.5. In this study, 434(1-63) has been refolded by adding either 1.7 M NaCl or 0.47 M NaTFA to the...
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[NMR paper] Location of the Zn(2+)-binding site on S100B as determined by NMR spectroscopy and si
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In addition to binding Ca(2+), the S100 protein S100B binds Zn(2+) with relatively high affinity as confirmed using isothermal titration calorimetry (ITC; K(d) = 94 +/- 17 nM). The Zn(2+)-binding site on...
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[NMR paper] Trp repressor-operator binding: NMR and electrophoretic mobility shift studies of the
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Eur J Biochem. 1991 Aug 1;199(3):569-74
Authors: Concar DW, Whitford D, Williams RJ
Analyses of unimolecular electron self-exchange reactions provide...
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[NMR paper] The location of the polyphosphate-binding sites on cytochrome c measured by NMR param
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Eur J Biochem. 1991 Aug 1;199(3):569-74
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[NMR paper] NMR structure and functional studies of the Mu repressor DNA-binding domain.
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Biochemistry. 1999 Jun 29;38(26):8367-76
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[NMR paper] Location of a cation-binding site in the loop between helices F and G of bacteriorhod
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Biophys J. 1999 Mar;76(3):1523-31
Authors: Tuzi S, Yamaguchi S, Tanio M, Konishi H, Inoue S, Naito A,...
Sliding and target location of DNA-binding proteins:an NMR view of the lac repressor system.
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