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• W1520897545 abstract "DNA bending by DNA binding proteins is required to facilitate a myriad of essential cellular processes, including genome packaging, the formation of multi-protein complexes necessary for the expression of genetic information, the regulation of gene expression, and the correct positioning of recognition and catalytic elements required for site-specific hydrolysis of DNA. One mechanism proposed for protein induced DNA bending is that protein mediated neutralization of negatively charged phosphates on one face of the DNA produces a collapse of the DNA toward the neutralized surface. In order to further understand the role of phosphate neutralization in DNA bending, I have manipulated the energy required for achieving the 50o axial bend in the EcoRV endonuclease-DNA complex by either removing cationic protein side chains that contact DNA phosphates and/or replacing the charged phosphate with an uncharged methylphosphonate. I present evidence that neutralization of particular phosphates, positioned on the concave face of the bound DNA, can contribute favorably not only to the formation of the EcoRV-recognition complex but also to cleavage of the GATATC site. In addition, synergistic effects are observed when particular combinations of phosphates are neutralized. Fluorescence resonance energy transfer studies show that there is no significant difference in the degree of DNA bending in unmodified and modified complexes, implying that phosphate neutralization modulates the energetic cost of bending rather than the extent of bending. Further, van't Hoff analyses indicate that removal of interphosphate repulsion by phosphate neutralization contributes favorable enthalpy to EcoRV-DNA complex formation, and molecular dynamics simulations show that this favorable enthalpy does not derive from the formation of new contacts between the introduced methyl group and the protein. Taken together, these results support the model that asymmetric phosphate neutralization by a site-specific protein promotes DNA bending. My work marks the first in depth thermodynamic analysis of the impact of phosphate neutralization on protein-induced bending by a DNA bending protein. Further, it shows that this is an energetic strategy employed by proteins to overcome the energetic cost of DNA bending." @default.
• W1520897545 created "2016-06-24" @default.
• W1520897545 creator A5090298111 @default.
• W1520897545 date "2008-01-01" @default.
• W1520897545 modified "2023-09-27" @default.
• W1520897545 title "THE ROLE OF PHOSPHATE NEUTRALIZATION IN ECORV INDUCED DNA BENDING" @default.
• W1520897545 cites W129812222 @default.
• W1520897545 cites W1484352929 @default.
• W1520897545 cites W1515935592 @default.
• W1520897545 cites W1523752512 @default.
• W1520897545 cites W1525290642 @default.
• W1520897545 cites W1536128836 @default.
• W1520897545 cites W1537244871 @default.
• W1520897545 cites W1544991224 @default.
• W1520897545 cites W1550477628 @default.
• W1520897545 cites W1553672649 @default.
• W1520897545 cites W1559480198 @default.
• W1520897545 cites W1569973595 @default.
• W1520897545 cites W1595256727 @default.
• W1520897545 cites W176210329 @default.
• W1520897545 cites W1964363750 @default.
• W1520897545 cites W1966661986 @default.
• W1520897545 cites W1967930632 @default.
• W1520897545 cites W1968278001 @default.
• W1520897545 cites W1971062992 @default.
• W1520897545 cites W1972570207 @default.
• W1520897545 cites W1974197041 @default.
• W1520897545 cites W1977146894 @default.
• W1520897545 cites W1978220321 @default.
• W1520897545 cites W1979229978 @default.
• W1520897545 cites W1979244293 @default.
• W1520897545 cites W1979754901 @default.
• W1520897545 cites W1980316342 @default.
• W1520897545 cites W1981482769 @default.
• W1520897545 cites W1982438597 @default.
• W1520897545 cites W1982819863 @default.
• W1520897545 cites W1982878977 @default.
• W1520897545 cites W1983678802 @default.
• W1520897545 cites W1984547643 @default.
• W1520897545 cites W1985817667 @default.
• W1520897545 cites W1985991521 @default.
• W1520897545 cites W1986586522 @default.
• W1520897545 cites W1986748430 @default.
• W1520897545 cites W1987076738 @default.
• W1520897545 cites W1987525461 @default.
• W1520897545 cites W1989539099 @default.
• W1520897545 cites W1990505788 @default.
• W1520897545 cites W1992010506 @default.
• W1520897545 cites W1992108755 @default.
• W1520897545 cites W1992324135 @default.
• W1520897545 cites W1994593429 @default.
• W1520897545 cites W1994706623 @default.
• W1520897545 cites W1995513355 @default.
• W1520897545 cites W1995525445 @default.
• W1520897545 cites W1997459080 @default.
• W1520897545 cites W2001857107 @default.
• W1520897545 cites W2001898035 @default.
• W1520897545 cites W2002047536 @default.
• W1520897545 cites W2002530040 @default.
• W1520897545 cites W2002870290 @default.
• W1520897545 cites W2004473597 @default.
• W1520897545 cites W2006617032 @default.
• W1520897545 cites W2008713299 @default.
• W1520897545 cites W2009331672 @default.
• W1520897545 cites W2011353224 @default.
• W1520897545 cites W2012121208 @default.
• W1520897545 cites W2012446748 @default.
• W1520897545 cites W2013505287 @default.
• W1520897545 cites W2013803515 @default.
• W1520897545 cites W2013869206 @default.
• W1520897545 cites W2017091610 @default.
• W1520897545 cites W2017228697 @default.
• W1520897545 cites W2018507982 @default.
• W1520897545 cites W2019006831 @default.
• W1520897545 cites W2020610229 @default.
• W1520897545 cites W2021010454 @default.
• W1520897545 cites W2021163287 @default.
• W1520897545 cites W2023450156 @default.
• W1520897545 cites W2023872113 @default.
• W1520897545 cites W2024680067 @default.
• W1520897545 cites W2027298569 @default.
• W1520897545 cites W2028120697 @default.
• W1520897545 cites W2028847605 @default.
• W1520897545 cites W2029167106 @default.
• W1520897545 cites W2030467700 @default.
• W1520897545 cites W2033477060 @default.
• W1520897545 cites W2035797443 @default.
• W1520897545 cites W2036082188 @default.
• W1520897545 cites W2037122000 @default.
• W1520897545 cites W2037928324 @default.
• W1520897545 cites W2038323867 @default.
• W1520897545 cites W2039432390 @default.
• W1520897545 cites W2041701954 @default.
• W1520897545 cites W2041781038 @default.
• W1520897545 cites W2044791372 @default.
• W1520897545 cites W2045317054 @default.
• W1520897545 cites W2045563258 @default.
• W1520897545 cites W2050316841 @default.
• W1520897545 cites W2051021996 @default.
• W1520897545 cites W2052514587 @default.

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