Kinetic studies of sequence-specific binding of GCN4-bZIP peptides to DNA strands immobilized on a 27-MHz quartz-crystal microbalance

Biochemistry
Y OkahataT Morii

Abstract

Specific protein-DNA interaction was studied quantitatively by using a highly sensitive 27-MHz quartz-crystal microbalance (QCM). Biotinylated DNA double strands (21 bp, having a CRE site of 5'ATGACGTCAT3') were immobilized on an avidin-bound QCM surface, and sequence-specific binding of bZIP 56-mer peptides (having both the basic region for binding and the leucine zipper region for dimerization) to the DNA strand on the QCM was observed. The binding amount (Deltam) at the nanogram level and kinetic parameters such as association constants (Ka) and binding and dissociation rate constants (k1 and k-1) could be obtained from time courses of QCM frequency decreases. A bZIP peptide as a dimer was observed to bind sequence-specifically to one DNA strand having a CRE site. Ka values of ss-bZIP, in which the leucine-zipper region of bZIP was substituted by a Cys-Cys linkage, were largely decreased, and the sequence selectivity also disappeared. Ka values obtained by the QCM method showed good agreement with those obtained from the conventional gel mobility shift assay or from circular dichroism spectrum changes. When the specific sequence of the CRE site of DNA strands was partly changed, Ka values decreased by about a half due to the...Continue Reading

References

May 1, 1985·Molecular and Cellular Biology·R M GronostajskiJ Hurwitz
Oct 1, 1983·Proceedings of the National Academy of Sciences of the United States of America·K NagataJ Hurwitz

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Citations

May 5, 1999·Journal of Chromatography. B, Biomedical Sciences and Applications·C P Woodbury, D L Venton
Jan 15, 2005·The EMBO Journal·Stefan Ludwig AmeresChristian Berens
Nov 25, 2003·Kidney International·Yoshihiro MotomiyaIkuro Maruyama
Oct 18, 2005·DNA and Cell Biology·Takeshi Saito, Mikio Tomida
Aug 23, 2005·Nucleic Acids Research·Kei MoriyamaIchiro Hirao
May 8, 2008·Bioscience, Biotechnology, and Biochemistry·Miya KamihiraTsutomu Nakayama
Dec 12, 2007·Analytical Sciences : the International Journal of the Japan Society for Analytical Chemistry·Masanori KanazawaShigeori Takenaka
Nov 26, 2008·Physical Chemistry Chemical Physics : PCCP·Masato TominagaIsao Taniguchi
Dec 15, 2015·Physical Chemistry Chemical Physics : PCCP·Michelle L GillArthur G Palmer
May 21, 2008·The Journal of Cell Biology·Hironori KawaharaHideyuki Okano
May 12, 2007·Microvascular Research·Yuichiro HigashimotoHiroyoshi Inoue
Sep 2, 2005·Molecular Microbiology·Toru TakahashiKeietsu Abe
Apr 19, 2007·Chemistry, an Asian Journal·Maki Takatani, Yukishige Ito
Feb 24, 2001·Advances in Colloid and Interface Science·V Buckin, E Kudryashov
Aug 27, 2005·Bioorganic & Medicinal Chemistry Letters·Yoichi TakakusagiFumio Sugawara
Aug 5, 2008·Analytical Biochemistry·Shinobu SatoShigeori Takenaka
Dec 18, 2013·Biochemical and Biophysical Research Communications·Takanori MatsuiSho-ichi Yamagishi
Nov 26, 2008·Developmental Biology·Smadar Ben-Tabou de-Leon, Eric H Davidson
Apr 16, 2014·Carbohydrate Research·Shinichi MochizukiKazuo Sakurai
Nov 17, 2007·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Shinobu SatoShigeori Takenaka
Oct 29, 2015·Chemical Reviews·Yoshiko MiuraHirokazu Seto
Oct 12, 2016·Chemical & Pharmaceutical Bulletin·Kuniharu UtsunoHasan Uludağ
Jan 24, 2007·Journal of Molecular Recognition : JMR·Hideyuki MitomoYoshio Okahata
Feb 10, 2018·Scientific Reports·Kensei TaguchiKei Fukami
Oct 28, 2010·British Journal of Pharmacology·Naoto TadanoToshiyuki Sasaguri
Jan 15, 2016·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·Sargis Karapetyan, Nicolas E Buchler
Feb 9, 2020·International Journal of Molecular Sciences·Kiyoto KamagataDwiky Rendra Graha Subekti

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