Dual role of φ29 DNA polymerase Lys529 in stabilisation of the DNA priming-terminus and the terminal protein-priming residue at the polymerisation site

PLoS One. 2013 Sep 4;8(9):e72765. doi: 10.1371/journal.pone.0072765. eCollection 2013.


Resolution of the crystallographic structure of φ29 DNA polymerase binary and ternary complexes showed that residue Lys529, located at the C-terminus of the palm subdomain, establishes contacts with the 3' terminal phosphodiester bond. In this paper, site-directed mutants at this Lys residue were used to analyse its functional importance for the synthetic activities of φ29 DNA polymerase, an enzyme that starts linear φ29 DNA replication using a terminal protein (TP) as primer. Our results show that single replacement of φ29 DNA polymerase residue Lys529 by Ala or Glu decreases the stabilisation of the primer-terminus at the polymerisation active site, impairing both the insertion of the incoming nucleotide when DNA and TP are used as primers and the translocation step required for the next incoming nucleotide incorporation. In addition, combination of the DNA polymerase mutants with a TP derivative at residue Glu233, neighbour to the priming residue Ser232, leads us to infer a direct contact between Lys529 and Glu233 for initiation of TP-DNA replication. Altogether, the results are compatible with a sequential binding of φ29 DNA polymerase residue Lys529 with TP and DNA during replication of TP-DNA.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • DNA Replication / genetics
  • DNA Replication / physiology
  • DNA-Directed DNA Polymerase / chemistry
  • DNA-Directed DNA Polymerase / genetics
  • DNA-Directed DNA Polymerase / metabolism*
  • Lysine / chemistry*
  • Lysine / genetics
  • Mutagenesis, Site-Directed
  • Structure-Activity Relationship


  • DNA-Directed DNA Polymerase
  • Lysine

Grants and funding

This work was supported by the Spanish Ministry of Economy and Competitiveness [grant BFU2011-23645 to M.S.], the Spanish Ministry of Science and Innovation [grant Consolider-Ingenio CSD2007-00015 to M.S.], the Autonomous Community of Madrid [grant S2009MAT-1507 to M.S.], and by an institutional grant from Fundación Ramón Areces to the Centro de Biología Molecular “Severo Ochoa”. A.P. is a predoctoral fellow from the Spanish Ministry of Education. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.