Sandbox 666: Difference between revisions
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There is one ß-strand parallel to the DNA backbone, which contains amino acid residues essential for catalysis (e.g.: residues engaged in phosphate contacts<ref name="A" />). The reaction is due to a catalytic sequence motif, which is found in most type II restriction endonucleases: the '''PD…(D/E)XK motif'''. For ''Eco''RI,<scene name='Sandbox_666/Catalytic_core/3'>this catalytic sequence</scene> is '''PD<sup>91</sup> …E<sup>111</sup>AK''' and the lysine residue is essential to the catalysis, but the proline residue is not important. This motif is also responsible for Mg<sup>2+</sup> binding (Asp90 and Glu111)<ref>Structure and function of type II restriction endonucleases | There is one ß-strand parallel to the DNA backbone, which contains amino acid residues essential for catalysis (e.g.: residues engaged in phosphate contacts<ref name="A">Recognition and cleavage of DNA by type-II restriction endonucleases, Pingoud A. & Jeltsch A. Eur.J.Biochem. 246,1-22 (1997)</ref>). The reaction is due to a catalytic sequence motif, which is found in most type II restriction endonucleases: the '''PD…(D/E)XK motif'''. For ''Eco''RI,<scene name='Sandbox_666/Catalytic_core/3'>this catalytic sequence</scene> is '''PD<sup>91</sup> …E<sup>111</sup>AK''' and the lysine residue is essential to the catalysis, but the proline residue is not important. This motif is also responsible for Mg<sup>2+</sup> binding (Asp90 and Glu111)<ref>Structure and function of type II restriction endonucleases | ||
Alfred Pingoud, Albert Jeltsch | Alfred Pingoud, Albert Jeltsch | ||
Nucleic Acids Res. 2001 September 15; 29(18): 3705–3727. | Nucleic Acids Res. 2001 September 15; 29(18): 3705–3727. | ||
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This binding by the major groove is due to the position of scissile phosphodiester bonds.<ref name="A" | This binding by the major groove is due to the position of scissile phosphodiester bonds.<ref name="A" /> | ||
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