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Structure paper

TitleModifying the beta,gamma Leaving-Group Bridging Oxygen Alters Nucleotide Incorporation Efficiency, Fidelity, and the Catalytic Mechanism of DNA Polymerase beta.
Journal, issue, pagesBiochemistry, Vol. 46, Page 461-471, Year 2007
Publish dateOct 18, 2006 (structure data deposition date)
AuthorsSucato, C.A. / Upton, T.G. / Kashemirov, B.A. / Batra, V.K. / Martinek, V. / Xiang, Y. / Beard, W.A. / Pedersen, L.C. / Wilson, S.H. / McKenna, C.E. ...Sucato, C.A. / Upton, T.G. / Kashemirov, B.A. / Batra, V.K. / Martinek, V. / Xiang, Y. / Beard, W.A. / Pedersen, L.C. / Wilson, S.H. / McKenna, C.E. / Florian, J. / Warshel, A. / Goodman, M.F.
External linksBiochemistry / PubMed:17209556
MethodsX-ray diffraction
Resolution2.1 - 2.2 Å
Structure data

PDB-2iso:
Ternary complex of DNA Polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-difluoromethylene triphosphate
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-2isp:
Ternary complex of DNA Polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-methylene triphosphate
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-NA:
Unknown entry

ChemComp-CL:
Unknown entry

ChemComp-GFF:
2'-DEOXY-5'-O-[({[DIFLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL}OXY)(HYDROXY)PHOSPHORYL]GUANOSINE / dGTP analogue*YM

ChemComp-HOH:
WATER

ChemComp-GGH:
2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE

Source
  • homo sapiens (human)
KeywordsTRANSFERASE/DNA / nucleotidyl transferase / polymerase / leaving-group / TRANSFERASE-DNA COMPLEX / DNA polymerase

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