Summary information and primary citation

PDB-id
3mby; SNAP-derived features in text and JSON formats; DNAproDB
Class
transferase, lyase-DNA
Method
X-ray (2.0 Å)
Summary
Ternary complex of DNA polymerase beta with template base a and 8oxodgtp in the active site with a dideoxy terminated primer
Reference
Batra VK, Beard WA, Hou EW, Pedersen LC, Prasad R, Wilson SH (2010): "Mutagenic conformation of 8-oxo-7,8-dihydro-2'-dGTP in the confines of a DNA polymerase active site." Nat.Struct.Mol.Biol., 17, 889-890. doi: 10.1038/nsmb.1852.
Abstract
The major product of oxidative base damage is 8-oxo-7,8-dihydro-2'-deoxyguanine (8odG). The coding potential of this lesion is modulated by its glycosidic torsion angle that controls whether its Watson-Crick or Hoogsteen edge is used for base pairing. The 2.0-A structure of DNA polymerase (pol) beta bound with 8odGTP opposite template adenine indicates that the modified nucleotide assumes the mutagenic syn conformation and that the nonmutagenic anti conformation would be incompatible with efficient DNA synthesis.

Cartoon-block schematics in six views (download the tarball)

PyMOL session file Download PDB file View in 3Dmol.js