Crystal structure of Pfu, the high fidelity DNA polymerase from Pyrococcus furiosus

Suhng Wook Kim, Dong Uk Kim, Jin Kwang Kim, Lin Woo Kang, Hyun Soo Cho

Research output: Contribution to journalArticlepeer-review

39 Citations (Scopus)


We have determined a 2.6 Å resolution crystal structure of Pfu DNA polymerase, the most commonly used high fidelity PCR enzyme, from Pyrococcus furiosus. Although the structures of Pfu and KOD1 are highly similar, the structure of Pfu elucidates the electron density of the interface between the exonuclease and thumb domains, which has not been previously observed in the KOD1 structure. The interaction of these two domains is known to coordinate the proofreading and polymerization activity of DNA polymerases, especially via H147 that is present within the loop (residues 144-158) of the exonuclease domain. In our structure of Pfu, however, E148 rather than H147 is located at better position to interact with the thumb domain. In addition, the structural analysis of Pfu and KOD1 shows that both the Y-GG/A and β-hairpin motifs of Pfu are found to differ with that of KOD1, and may explain differences in processivity. This information enables us to better understand the mechanisms of polymerization and proofreading of DNA polymerases.

Original languageEnglish
Pages (from-to)356-361
Number of pages6
JournalInternational Journal of Biological Macromolecules
Issue number4
Publication statusPublished - 2008 May 1

Bibliographical note

Funding Information:
We thank Drs. Sun-Sin Cha and Kyunghwa Kim for assistance at beamline 6B and 4MX of the Pohang Light Source. This work was supported by Korea Research Foundation grants from the Korean Government (R08-2004-000-10403-02-004), by Korea Science and Engineering Foundation (KOSEF) grant (R112000078010010), by Korea Research Foundation Grant funded by the Korean Government (KRF-2004-005-J04502), and by a grant (Code # 20070501034003) from BioGreen 21 Program, Rural Development Administration, in Republic of Korea.


  • Crystal structure
  • DNA polymerase
  • Pfu

ASJC Scopus subject areas

  • Structural Biology
  • Biochemistry
  • Molecular Biology


Dive into the research topics of 'Crystal structure of Pfu, the high fidelity DNA polymerase from Pyrococcus furiosus'. Together they form a unique fingerprint.

Cite this