4DNB

METHYLATION OF THE ECORI RECOGNITION SITE DOES NOT ALTER DNA CONFORMATION. THE CRYSTAL STRUCTURE OF D(CGCGAM6ATTCGCG) AT 2.0 ANGSTROMS RESOLUTION

4DNB の概要

• エントリーDOI: 10.2210/pdb4dnb/pdb
• 分子名称: DNA (5'-D(*CP*GP*CP*GP*AP*(6MA)P*TP*TP*CP*GP*CP*G)-3') (2 entities in total)
• 機能のキーワード: b-dna, double helix, modified, dna
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 7354.84

構造登録者

Frederick, C.A.,Quigley, G.J.,Van Der Marel, G.A.,Van Boom, J.H.,Wang, A.H.-J.,Rich, A. (登録日: 1988-08-29, 公開日: 1989-01-09, 最終更新日: 2024-02-28)

主引用文献

Frederick, C.A.,Quigley, G.J.,van der Marel, G.A.,van Boom, J.H.,Wang, A.H.,Rich, A.
Methylation of the EcoRI recognition site does not alter DNA conformation: the crystal structure of d(CGCGAm6ATTCGCG) at 2.0-A resolution.
J.Biol.Chem., 263:17872-17879, 1988

PubMed Abstract: Methylation of nucleic acid bases is known to prevent the cleavage of DNA by restriction endonucleases. The effect on the conformation of the DNA molecule itself and hence its interactions with other DNA binding proteins has been a subject of general interest. To help address this question, we have solved the crystal structure at 2.0 A of the methylated dodecamer, d(CGCGAm6ATTCGCG), which contains the EcoRI recognition sequence and have compared the conformation of the methylated molecule with that of its nonmethylated counterpart. This methylation produces a bulky hydrophobic patch on the floor of the major groove of B-DNA which plays an important role in the mechanism of inhibition of EcoRI restriction activity. However, with the exception of small perturbations in the immediate vicinity of the methyl groups, the structure is virtually unchanged. Given the lack of a conformational change upon methylation, we have extended this thesis of the recognition process to other types of restriction systems and found that different restriction enzymes seem to have their own characteristic protein-DNA interactions. The relative spatial orientations of methylation sites and cleavage sites must play a major role in ordering protein secondary structure elements as well as subunit-subunit interactions along the DNA strand.

PubMed: 2846582

実験手法

X-RAY DIFFRACTION (2 Å)