3C25

Crystal Structure of NotI Restriction Endonuclease Bound to Cognate DNA

「3BVR」から置き換えられました

3C25 の概要

• エントリーDOI: 10.2210/pdb3c25/pdb
• 関連するPDBエントリー: 3BVQ
• 分子名称: DNA (5'-D(*DCP*DGP*DGP*DAP*DGP*DGP*DCP*DGP*DCP*DGP*DGP*DCP*DCP*DGP*DCP*DGP*DCP*DCP*DGP*DCP*DCP*DG)-3'), DNA (5'-D(*DCP*DGP*DGP*DCP*DGP*DGP*DCP*DGP*DCP*DGP*DGP*DCP*DCP*DGP*DCP*DGP*DCP*DCP*DTP*DCP*DCP*DG)-3'), NotI restriction endonuclease, ... (6 entities in total)
• 機能のキーワード: protein-dna complex, restriction enzyme fold, pd-(d/e)-xk, restriction endonuclease, rare-cutting, fe-cys4 motif, iron-sulfur protein, hydrolase-dna complex, hydrolase/dna
• 由来する生物種: Nocardia otitidiscaviarum; 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 98729.41

構造登録者

Lambert, A.R.,Sussman, D.,Shen, B.,Stoddard, B.L. (登録日: 2008-01-24, 公開日: 2008-02-12, 最終更新日: 2024-02-21)

主引用文献

Lambert, A.R.,Sussman, D.,Shen, B.,Maunus, R.,Nix, J.,Samuelson, J.,Xu, S.Y.,Stoddard, B.L.
Structures of the Rare-Cutting Restriction Endonuclease NotI Reveal a Unique Metal Binding Fold Involved in DNA Binding.
Structure, 16:558-569, 2008

PubMed Abstract: The structure of the rare-cutting restriction endonuclease NotI, which recognizes the 8 bp target 5'-GCGGCCGC-3', has been solved with and without bound DNA. Because of its specificity (recognizing a site that occurs once per 65 kb), NotI is used to generate large genomic fragments and to map DNA methylation status. NotI contains a unique metal binding fold, found in a variety of putative endonucleases, occupied by an iron atom coordinated within a tetrahedral Cys4 motif. This domain positions nearby protein elements for DNA recognition, and serves a structural role. While recognition of the central six base pairs of the target is accomplished via a saturated hydrogen bond network typical of restriction enzymes, the most peripheral base pairs are engaged in a single direct contact in the major groove, reflecting reduced pressure to recognize those positions. NotI may represent an evolutionary intermediate between mobile endonucleases (which recognize longer target sites) and canonical restriction endonucleases.

PubMed: 18400177
DOI: 10.1016/j.str.2008.01.017

実験手法

X-RAY DIFFRACTION (2.5 Å)