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Structure paper

TitleViewing Human DNA Polymerase beta Faithfully and Unfaithfully Bypass an Oxidative Lesion by Time-Dependent Crystallography.
Journal, issue, pagesJ. Am. Chem. Soc., Vol. 137, Page 5225-5230, Year 2015
Publish dateOct 31, 2014 (structure data deposition date)
AuthorsVyas, R. / Reed, A.J. / Tokarsky, E.J. / Suo, Z.
External linksJ. Am. Chem. Soc. / PubMed:25825995
MethodsX-ray diffraction
Resolution1.9 - 2.7 Å
Structure data

PDB-4rpx:
Precatalytic ternary complex of Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG) and dCTP in the presence of CaCl2
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-4rpy:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dCTP soaked with MgCl2 for 30 s
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-4rpz:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dCTP soaked with MgCl2 for 60 s
Method: X-RAY DIFFRACTION / Resolution: 2.19 Å

PDB-4rq0:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dCTP soaked with MgCl2 for 80 s
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-4rq1:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dCTP soaked with MgCl2 for 1hr
Method: X-RAY DIFFRACTION / Resolution: 2.7 Å

PDB-4rq2:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dCTP soaked with MnCl2 for 35 s
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-4rq3:
Precatalytic ternary complex of Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG) and dATP in the presence of CaCl2
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-4rq4:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dATP soaked with MgCl2 for 30 s
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-4rq5:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dATP soaked with MgCl2 for 60 s
Method: X-RAY DIFFRACTION / Resolution: 2.32 Å

PDB-4rq6:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dATP soaked with MgCl2 for 80 s
Method: X-RAY DIFFRACTION / Resolution: 2.25 Å

PDB-4rq7:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dATP soaked with MgCl2 for 1hr
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-4rq8:
Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine(8-oxoG) and dATP soaked with MnCl2 for 35 s
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

Chemicals

ChemComp-DCP:
2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE / Deoxycytidine triphosphate

ChemComp-CA:
Unknown entry

ChemComp-NA:
Unknown entry

ChemComp-CL:
Unknown entry / Chloride

ChemComp-ACT:
ACETATE ION / Acetate

ChemComp-HOH:
WATER / Water

ChemComp-MG:
Unknown entry

ChemComp-PPV:
PYROPHOSPHATE / Pyrophosphate

ChemComp-MN:
Unknown entry

ChemComp-DTP:
2'-DEOXYADENOSINE 5'-TRIPHOSPHATE / Deoxyadenosine triphosphate

Source
  • homo sapiens (human)
  • synthetic construct (others)
KeywordsTRANSFERASE/DNA / X-family / pol beta / TRANSFERASE-DNA complex

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