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Structure paper

TitleStructural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides.
Journal, issue, pagesJ. Biol. Chem., Vol. 287, Page 28215-28226, Year 2012
Publish dateFeb 15, 2012 (structure data deposition date)
AuthorsWang, W. / Wu, E.Y. / Hellinga, H.W. / Beese, L.S.
External linksJ. Biol. Chem. / PubMed:22648417
MethodsX-ray diffraction
Resolution1.58 - 1.95 Å
Structure data

PDB-4dqi:
Ternary complex of Bacillus DNA Polymerase I Large Fragment, DNA duplex, and dCTP (paired with dG of template)
Method: X-RAY DIFFRACTION / Resolution: 1.69 Å

PDB-4dqp:
Ternary complex of Bacillus DNA Polymerase I Large Fragment, DNA duplex, and ddCTP (paired with dG of template)
Method: X-RAY DIFFRACTION / Resolution: 1.74 Å

PDB-4dqq:
Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mg2+
Method: X-RAY DIFFRACTION / Resolution: 1.595 Å

PDB-4dqr:
Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mn2+
Method: X-RAY DIFFRACTION / Resolution: 1.95 Å

PDB-4dqs:
Binary complex of Bacillus DNA Polymerase I Large Fragment and duplex DNA with rC in primer terminus paired with dG of template
Method: X-RAY DIFFRACTION / Resolution: 1.66 Å

PDB-4ds4:
Ternary complex of Bacillus DNA Polymerase I Large Fragment, DNA duplex, and rCTP in presence of Mn2+
Method: X-RAY DIFFRACTION / Resolution: 1.681 Å

PDB-4ds5:
Ternary complex of Bacillus DNA Polymerase I Large Fragment, DNA duplex, and rCTP in presence of Mg2+
Method: X-RAY DIFFRACTION / Resolution: 1.68 Å

PDB-4dse:
Ternary complex of Bacillus DNA Polymerase I Large Fragment F710Y, DNA duplex, and rCTP (paired with dG of template) in presence of Mg2+
Method: X-RAY DIFFRACTION / Resolution: 1.67 Å

PDB-4dsf:
Ternary complex of Bacillus DNA Polymerase I Large Fragment F710Y, DNA duplex, and rCTP (paired with dG of template) in presence of Mn2+
Method: X-RAY DIFFRACTION / Resolution: 1.661 Å

PDB-4e0d:
Binary complex of Bacillus DNA Polymerase I Large Fragment E658A and duplex DNA
Method: X-RAY DIFFRACTION / Resolution: 1.58 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-DCP:
2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE

ChemComp-SO4:
SULFATE ION

ChemComp-HOH:
WATER

ChemComp-DCT:
2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE

ChemComp-CTP:
CYTIDINE-5'-TRIPHOSPHATE

ChemComp-MPD:
(4S)-2-METHYL-2,4-PENTANEDIOL / precipitant*YM

ChemComp-MES:
2-(N-MORPHOLINO)-ETHANESULFONIC ACID / pH buffer*YM

ChemComp-MN:
Unknown entry

Source
  • geobacillus kaustophilus (bacteria)
  • synthetic construct (others)
KeywordsTRANSFERASE/DNA / DNA Polymerase I / protein-DNA complex / Cytosine-Guanine / closed form / TRANSFERASE-DNA complex / rCTP-dG / rC-dG

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