PMID: 9421532Feb 28, 1998Paper

Recognition of DNA structure by 434 repressor

Nucleic Acids Research
Gerald B Koudelka

Abstract

In complexes of bacteriophage 434 binding sites with 434 repressor the central 4 bp of the 14 bp site are not contacted by the protein, although changes in these bases alter binding site affinity for the repressor. Our previous data suggested that the ability of the non-contacted central bases to be overtwisted in repressor-DNA complexes governs affinity of the binding site for 434 repressor. This idea was tested by examining the affinity of two central sequence variant 434 binding sites for 434 repressor as a function of binding site average twist. The 434 repressor preferred the relatively overwound binding site to the two more underwound forms. The greatest affinity enhancement resulting from increasing twist was observed with a binding site that is relatively underwound and more resistant to twisting deformation. Consistent with the idea that 434 repressor overtwists its binding site upon DNA binding, we show that 434 repressor is capable of binding to sites bearing a single base insertion in their center (a 15mer), but binds poorly to binding sites bearing central base deletions (12mer and 13mer). The N-terminal dimer interface plays a large role in determining 434 repressor central base preferences. Mutations in this inte...Continue Reading

References

Oct 1, 1979·Proceedings of the National Academy of Sciences of the United States of America·A D JohnsonM Ptashne
Oct 24, 1991·Nature·S C Harrison
Jan 1, 1990·Annual Review of Biochemistry·S C Harrison, A K Aggarwal
Jan 1, 1987·Methods in Enzymology·T A KunkelR A Zakour
Jul 1, 1988·Proceedings of the National Academy of Sciences of the United States of America·G B KoudelkaM Ptashne
Jan 1, 1983·Methods in Enzymology·J Messing
Nov 15, 1983·Journal of Molecular Biology·D Shore, R L Baldwin
Feb 15, 1984·Journal of Molecular Biology·D S Horowitz, J C Wang
Nov 15, 1983·Journal of Molecular Biology·D Shore, R L Baldwin
Jan 20, 1995·The Journal of Biological Chemistry·A C Bell, G B Koudelka
Aug 2, 1996·Journal of Molecular Biology·P J HeathJ M Schurr

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Citations

Jul 5, 2003·Journal of Molecular Biology·Thomas W LynchPhoebe A Rice
Aug 2, 2012·Quarterly Reviews of Biophysics·Jonathan M FoggLynn Zechiedrich
Sep 10, 2010·The Journal of Biological Chemistry·Gonzalo Durante-RodríguezManuel Carmona
Jan 1, 2000·Journal of Biomolecular Structure & Dynamics·K KaluarachchiB A Luxon
Sep 5, 2009·Nucleic Acids Research·Satoshi YamasakiAkinori Sarai
Dec 7, 2010·Nucleic Acids Research·Craig BrownKevin Gaston
May 15, 2010·Nucleic Acids Research·Marc van Dijk, Alexandre M J J Bonvin
Feb 20, 2007·Journal of Bacteriology·Paul Shkilnyj, Gerald B Koudelka
Jun 24, 2004·Journal of Molecular Biology·Steven A Mauro, Gerald B Koudelka
Feb 13, 2007·Biophysical Journal·Silvia ZorrillaNathalie Declerck
Apr 23, 2003·FEBS Letters·Colin ScottJeffrey Green
Nov 18, 2010·Biophysical Journal·Irina V DobrovolskaiaGaurav Arya
Jan 22, 2017·Biophysical Journal·Agnes NoySarah A Harris
Jun 29, 2000·The Journal of Biological Chemistry·K E Shearwin, J B Egan
Feb 6, 2003·The Journal of Biological Chemistry·Steven A MauroGerald B Koudelka
Sep 24, 2020·Journal of the American Chemical Society·Julien C VantouroutPhil S Baran

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