SNAP-annotated 5mC-DNA-protein interactions: PDB entry 8ik4

PDB-id

8ik4; DSSR-derived features in text and JSON formats; DNAproDB

Class

DNA binding protein

Method

X-ray (2.1 Å)

Summary

Structure of DNA binding domain of mcrbc endonuclease bound to hemimethylated DNA: l68f mutant

Reference

Adhav VA, Saikrishnan K: "Structural basis of target recognition by the DNA binding domain of McrBC."

Abstract

 

• The contacts include paired nucleotides (mostly a G in Watson-Crick G-C pairing) and amino-acids within a 4.5-Å distance cutoff to base atoms of 5mC.
• The structure is oriented in the base reference frame of 5mC, allowing for easy comparison and direct superimposition between entries.
• The black sphere (•) denotes the 5-methyl carbon atom in 5mC.