Sandbox 666: Difference between revisions
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Nucleic Acids Res. 2001 September 15; 29(18): 3705–3727. | Nucleic Acids Res. 2001 September 15; 29(18): 3705–3727. | ||
PMCID: PMC55916</ref> | PMCID: PMC55916</ref> | ||
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. | ||
[[Image:Catalytic 1ERI.png | thumb | The catalytic core of Eco RI with the target DNA|left|400px]] | [[Image:Catalytic 1ERI.png | thumb | The catalytic core of Eco RI with the target DNA|left|400px]] | ||
==Catalytic mechanism== | ==Catalytic mechanism== | ||
