Summary information and primary citation

PDB-id
2pzs; SNAP-derived features in text and JSON formats; DNAproDB
Class
replication, transferase-DNA
Method
X-ray (2.6 Å)
Summary
Phi29 DNA polymerase complexed with primer-template DNA (post-translocation binary complex)
Reference
Berman AJ, Kamtekar S, Goodman JL, Lazaro JM, de Vega M, Blanco L, Salas M, Steitz TA (2007): "Structures of phi29 DNA polymerase complexed with substrate: the mechanism of translocation in B-family polymerases." Embo J., 26, 3494-3505. doi: 10.1038/sj.emboj.7601780.
Abstract
Replicative DNA polymerases (DNAPs) move along template DNA in a processive manner. The structural basis of the mechanism of translocation has been better studied in the A-family of polymerases than in the B-family of replicative polymerases. To address this issue, we have determined the X-ray crystal structures of phi29 DNAP, a member of the protein-primed subgroup of the B-family of polymerases, complexed with primer-template DNA in the presence or absence of the incoming nucleoside triphosphate, the pre- and post-translocated states, respectively. Comparison of these structures reveals a mechanism of translocation that appears to be facilitated by the coordinated movement of two conserved tyrosine residues into the insertion site. This differs from the mechanism employed by the A-family polymerases, in which a conserved tyrosine moves into the templating and insertion sites during the translocation step. Polymerases from the two families also interact with downstream single-stranded template DNA in very different ways.

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

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