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Structure paper

TitleThe structural basis of the kinetic mechanism of a gap-filling X-family DNA polymerase that binds Mg(2+)-dNTP before binding to DNA.
Journal, issue, pagesJ. Mol. Biol., Vol. 417, Page 179-196, Year 2012
Publish dateJan 28, 2011 (structure data deposition date)
AuthorsNakane, S. / Ishikawa, H. / Nakagawa, N. / Kuramitsu, S. / Masui, R.
External linksJ. Mol. Biol. / PubMed:22306405
MethodsX-ray diffraction
Resolution1.36 - 3.3 Å
Structure data

PDB-3au2:
DNA polymerase X from Thermus thermophilus HB8 complexed with Ca-dGTP
Method: X-RAY DIFFRACTION / Resolution: 1.4 Å

PDB-3au6:
DNA polymerase X from Thermus thermophilus HB8 ternary complex with primer/template DNA and ddGTP
Method: X-RAY DIFFRACTION / Resolution: 3.3 Å

PDB-3auo:
DNA polymerase X from Thermus thermophilus HB8 ternary complex with 1-nt gapped DNA and ddGTP
Method: X-RAY DIFFRACTION / Resolution: 2.7 Å

PDB-3b0x:
K263A mutant of PolX from Thermus thermophilus HB8 complexed with Ca-dGTP
Method: X-RAY DIFFRACTION / Resolution: 1.36 Å

PDB-3b0y:
K263D mutant of PolX from Thermus thermophilus HB8 complexed with Ca-dGTP
Method: X-RAY DIFFRACTION / Resolution: 1.45 Å

Chemicals

ChemComp-DGT:
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE

ChemComp-ZN:
Unknown entry

ChemComp-CA:
Unknown entry

ChemComp-CL:
Unknown entry

ChemComp-HOH:
WATER

ChemComp-DG3:
2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE

ChemComp-MG:
Unknown entry

ChemComp-SO4:
SULFATE ION

Source
  • thermus thermophilus (bacteria)
KeywordsTRANSFERASE / RSGI / Structural Genomics / RIKEN Structural Genomics/Proteomics Initiative / POLXc doamin / PHP domain / DNA polymerase / dRP lyase / AP endonuclease / DNA repair / DNA binding / nucleotide binding / TRANSFERASE/DNA / POLXc domain / TRANSFERASE-DNA complex / 3'-5' exonuclease / POLXc / PHP / nucleotide / DNA

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