6PBD

DNA N6-Adenine Methyltransferase CcrM In Complex with Double-Stranded DNA Oligonucleotide Containing Its Recognition Sequence GAATC

6PBD の概要

• エントリーDOI: 10.2210/pdb6pbd/pdb
• 分子名称: Modification methylase CcrMI, DNA (5'-D(*CP*GP*AP*TP*TP*CP*AP*AP*TP*GP*AP*AP*TP*CP*CP*CP*AP*AP*G)-3'), DNA (5'-D(*GP*CP*TP*TP*GP*GP*GP*AP*TP*TP*CP*AP*TP*TP*GP*AP*AP*TP*C)-3'), ... (6 entities in total)
• 機能のキーワード: dna methylation, gantc recognition, base flipping, transferase-dna complex, transferase/dna
• 由来する生物種: Caulobacter vibrioides; 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 93944.14

構造登録者

Horton, J.R.,Cheng, X.,Woodcock, C.B. (登録日: 2019-06-13, 公開日: 2019-10-23, 最終更新日: 2023-10-11)

主引用文献

Horton, J.R.,Woodcock, C.B.,Opot, S.B.,Reich, N.O.,Zhang, X.,Cheng, X.
The cell cycle-regulated DNA adenine methyltransferase CcrM opens a bubble at its DNA recognition site.
Nat Commun, 10:4600-4600, 2019

PubMed Abstract: The Caulobacter crescentus cell cycle-regulated DNA methyltransferase (CcrM) methylates the adenine of hemimethylated GANTC after replication. Here we present the structure of CcrM in complex with double-stranded DNA containing the recognition sequence. CcrM contains an N-terminal methyltransferase domain and a C-terminal nonspecific DNA-binding domain. CcrM is a dimer, with each monomer contacting primarily one DNA strand: the methyltransferase domain of one molecule binds the target strand, recognizes the target sequence, and catalyzes methyl transfer, while the C-terminal domain of the second molecule binds the non-target strand. The DNA contacts at the 5-base pair recognition site results in dramatic DNA distortions including bending, unwinding and base flipping. The two DNA strands are pulled apart, creating a bubble comprising four recognized base pairs. The five bases of the target strand are recognized meticulously by stacking contacts, van der Waals interactions and specific Watson-Crick polar hydrogen bonds to ensure high enzymatic specificity.

PubMed: 31601797
DOI: 10.1038/s41467-019-12498-7

実験手法

X-RAY DIFFRACTION (2.343 Å)