Site-specific cation binding mediates TATA binding protein-DNA interaction from a hyperthermophilic archaeon

Biochemistry
S BergqvistJ E Ladbury

Abstract

Pyrococcus woesei (Pw) is a hyperthermophilic archaeal organism that exists under conditions of high salt and elevated temperature. In a previous study [O'Brien, R., DeDecker, B., Fleming, K., Sigler, P. B., and Ladbury, J. E., (1998) J. Mol. Biol. 279, 117-125], we showed that, despite the similarity of primary and secondary structure, the TATA box binding protein (TBP) from Pw binds thermodynamically in a fundamentally different way to its mesophilic counterparts. The affinity of the interaction increases as the salt concentration is increased. The formation of the protein-DNA complex involves the release of water and the uptake of ions, which were hypothesized to be cations. Here we test this hypothesis by selecting potential cation binding sites at negatively charged, acidic residues in the complex interface. These were substituted using site-directed mutagenesis of specific residues. Changes in the thermodynamic parameters on formation of the mutant protein-DNA complex were determined using isothermal titration calorimetry and compared to the wild type interaction. Removal of a glutamate residue from the binding site resulted in the uptake of one less cation on formation of the complex. This glutamate (E12) is directly inv...Continue Reading

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Citations

Dec 9, 2003·Journal of Molecular Biology·Gregory M K Poon, Robert B Macgregor
Apr 21, 2004·Journal of Molecular Biology·Simon BergqvistJohn E Ladbury
Jun 14, 2002·Archives of Biochemistry and Biophysics·Ihtshamul Haq
Feb 20, 2007·Journal of Bacteriology·Paul Shkilnyj, Gerald B Koudelka
Mar 11, 2009·Frontiers in Bioscience (Landmark Edition)·Dukagjin M BlakajMichael Brenowitz
Apr 20, 2014·Nucleic Acids Research·Andreas GietlDina Grohmann
Aug 8, 2007·Journal of Molecular Biology·Aaron R HiebJames A Goodrich
Jun 24, 2004·Journal of Molecular Biology·Steven A Mauro, Gerald B Koudelka
Mar 4, 2006·Journal of Molecular Biology·Dukagjin M BlakajMichael Brenowitz
Jan 30, 2013·Biochemical Society Transactions·Andreas Gietl, Dina Grohmann
Sep 14, 2012·Archaea : an International Microbiological Journal·Jody A WinterKaren A Bunting
Dec 3, 2014·Methods : a Companion to Methods in Enzymology·Michael R Duff, Elizabeth E Howell
Jan 1, 2010·Molecular BioSystems·Satoru NagatoishiKouhei Tsumoto
Apr 16, 2011·PloS One·Maidul HossainGopinatha Suresh Kumar
May 28, 2005·Journal of Molecular Biology·Christine M NunnSnezana Djordjevic
Nov 2, 2016·Biochemistry·Purva P BhojaneElizabeth E Howell
Jan 5, 2017·Scientific Reports·Yurou SangSuzana K Straus
Jan 16, 2009·Biochemical Society Transactions·Dina GrohmannFinn Werner
Jun 27, 2020·Angewandte Chemie·Katharina AchaziGerd Multhaup
Jun 26, 2020·The Journal of Physical Chemistry. B·Deepika NambiarElizabeth E Howell
Jul 15, 2020·Biomacromolecules·Jacek Janusz WalkowiakCarsten Werner
Jul 2, 2021·Advanced Science·Jacek J Walkowiak, Matthias Ballauff
Apr 7, 2012·Aquatic Biosystems·Ram KaranShiladitya Dassarma

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