Sandbox 666: Difference between revisions
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''Eco''RI (E.C. 3.1.21.4) is a hydrolase and its substrate is a double-strand DNA molecule and two water molecules. For its catalytic activity, ''Eco''RI needs a cofactor, which is the divalent ion Mg<sup>2+</sup>. ''Eco''RI hydrolyses the phosphodiester bond between the guanylic and adenylic residues resulting in 5’-phosphate sticky ends, which are complementary. | ''Eco''RI (E.C. 3.1.21.4) is a hydrolase and its substrate is a double-strand DNA molecule and two water molecules. For its catalytic activity, ''Eco''RI needs a cofactor, which is the divalent ion Mg<sup>2+</sup>. ''Eco''RI hydrolyses the phosphodiester bond between the guanylic and adenylic residues resulting in 5’-phosphate sticky ends, which are complementary. | ||
== Structure == | <nowiki><nowiki>Insert non-formatted text here</nowiki><nowiki>Insert non-formatted text here</nowiki></nowiki>== Structure == | ||
{{STRUCTURE_1eri| PDB=1eri | SCENE= | size='500'}} | {{STRUCTURE_1eri| PDB=1eri | SCENE= | size='500'}} | ||
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There are several non-contiguous structural elements, which are involved in DNA recognition: | There are several non-contiguous structural elements, which are involved in DNA recognition: | ||
Four helix (two of each subunit) recognize the major groove and bring residues, whose interact with DNA bases and backbones | |||
An extended peptide chain running through the major groove forms the specific contacts of the enzymes to the DNA. | |||
One ß-strand parallel to the DNA backbone, which contains amino acid residues essential for catalysis (e.g.: residues engaged in phosphate contacts) | |||
Two arms, which establish contacts with DNA backbones outside the recognition sequences. | |||
This binding by the major groove is due to the position of scissile phosphodiester bonds. | This binding by the major groove is due to the position of scissile phosphodiester bonds. | ||
