Summary information and primary citation

PDB-id
3rtv; SNAP-derived features in text and JSON formats; DNAproDB
Class
transferase-DNA
Method
X-ray (1.9 Å)
Summary
Crystal structure of the large fragment of DNA polymerase i from thermus aquaticus in a closed ternary complex with natural primer-template DNA
Reference
Betz K, Malyshev DA, Lavergne T, Welte W, Diederichs K, Dwyer TJ, Ordoukhanian P, Romesberg FE, Marx A (2012): "KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry." Nat.Chem.Biol., 8, 612-614. doi: 10.1038/nchembio.966.
Abstract
Many candidate unnatural DNA base pairs have been developed, but some of the best-replicated pairs adopt intercalated structures in free DNA that are difficult to reconcile with known mechanisms of polymerase recognition. Here we present crystal structures of KlenTaq DNA polymerase at different stages of replication for one such pair, dNaM-d5SICS, and show that efficient replication results from the polymerase itself, inducing the required natural-like structure.

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

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