1BUA

STRUCTURAL AND ENERGETIC ORIGINS OF INDIRECT READOUT IN SITE-SPECIFIC DNA CLEAVAGE BY A RESTRICTION ENDONUCLEASE

1BUA の概要

• エントリーDOI: 10.2210/pdb1bua/pdb
• 分子名称: DNA (5'-D(*AP*AP*AP*GP*AP*CP*IP*TP*CP*TP*T)-3'), ENDONUCLEASE ECORV (3 entities in total)
• 機能のキーワード: endonuclease ecorv (e.c.3.1.21.4)-dna complex, hydrolase-dna complex, hydrolase/dna
• 由来する生物種: Escherichia coli
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 63802.73

構造登録者

Perona, J.J.,Martin, A.M. (登録日: 1998-09-03, 公開日: 1998-09-09, 最終更新日: 2023-08-02)

主引用文献

Martin, A.M.,Sam, M.D.,Reich, N.O.,Perona, J.J.
Structural and energetic origins of indirect readout in site-specific DNA cleavage by a restriction endonuclease.
Nat.Struct.Biol., 6:269-276, 1999

PubMed Abstract: Specific recognition by EcoRV endonuclease of its cognate, sharply bent GATATC site at the center TA step occurs solely via hydrophobic interaction with thymine methyl groups. Mechanistic kinetic analyses of base analog-substituted DNAs at this position reveal that direct readout provides 5 kcal mol(-1) toward specificity, with an additional 6-10 kcal mol(-1) arising from indirect readout. Crystal structures of several base analog complexes show that the major-groove hydrophobic contacts are crucial to forming required divalent metal-binding sites, and that indirect readout operates in part through the sequence-dependent free-energy cost of unstacking the center base-pair step of the DNA.

PubMed: 10074946
DOI: 10.1038/6707

実験手法

X-RAY DIFFRACTION (2.15 Å)