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PDB: 258 results
6W2M
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BU of 6w2m by Molmil
Abortive ternary complex crystal structure of DNA polymerase Beta with 8OG-dC base pair at the primer terminus and flipped out dA
Descriptor: CHLORIDE ION, DNA polymerase beta, Downstream Primer Strand, ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2020-03-06
Release date:2020-07-22
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.998 Å)
Cite:Structure of a DNA polymerase abortive complex with the 8OG:dA base pair at the primer terminus.
Commun Biol, 3, 2020
6NKR
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BU of 6nkr by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with dGTP
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NKU
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BU of 6nku by Molmil
Ternary complex crystal structure of DNA polymerase Beta with "hot-spot sequence" with dGTP
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NKX
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BU of 6nkx by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with dGTP
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NKS
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BU of 6nks by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with beta-gamma CHF analog of dGTP
Descriptor: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.349 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NKW
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BU of 6nkw by Molmil
Ternary complex crystal structure of DNA polymerase Beta with "hot-spot sequence" with beta-gamma-methylene dGTP
Descriptor: 2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NL0
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BU of 6nl0 by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CF2 analogue of dGTP
Descriptor: 2'-DEOXY-5'-O-[({[DIFLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL}OXY)(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.97 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6PH6
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BU of 6ph6 by Molmil
Ternary complex crystal structure of DNA polymerase Beta with 2nt-gap with dCTP bound downstream
Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*G)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-06-25
Release date:2019-12-11
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:DNA polymerase beta nucleotide-stabilized template misalignment fidelity depends on local sequence context.
J.Biol.Chem., 295, 2020
6PH5
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BU of 6ph5 by Molmil
Binary product complex crystal structure of DNA polymerase Beta with an extra-helical template base
Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*GP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*C)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-06-25
Release date:2019-12-11
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.602 Å)
Cite:DNA polymerase beta nucleotide-stabilized template misalignment fidelity depends on local sequence context.
J.Biol.Chem., 295, 2020
6MR8
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BU of 6mr8 by Molmil
D276G DNA polymerase beta substrate complex with templating adenine and incoming Fapy-dGTP analog
Descriptor: 1,2-ETHANEDIOL, 1-[2-amino-5-(formylamino)-6-oxo-1,6-dihydropyrimidin-4-yl]-2,5-anhydro-1,3-dideoxy-6-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-D-ribo-hexitol, CALCIUM ION, ...
Authors:Freudenthal, B.D, Smith, M.R, Wilson, S.H, Beard, W.A.
Deposit date:2018-10-11
Release date:2019-01-30
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.897 Å)
Cite:A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition.
Nucleic Acids Res., 47, 2019
6N2R
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BU of 6n2r by Molmil
Binary complex crystal structure of DNA polymerase Beta with 5-carboxy-dC (5-caC) at the templating position
Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*(1CC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2018-11-14
Release date:2019-04-03
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta.
J.Biol.Chem., 294, 2019
6N2T
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BU of 6n2t by Molmil
Ternary complex crystal structure of DNA polymerase Beta with 5-hydroxymethyl-dC (5-hmC) at the templating position
Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(5HC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2018-11-14
Release date:2019-03-27
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta.
J.Biol.Chem., 294, 2019
6N2S
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BU of 6n2s by Molmil
Ternary complex crystal structure of DNA polymerase Beta with 5-carboxy-dC (5-caC) at the templating position
Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(1CC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2018-11-14
Release date:2019-03-27
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.457 Å)
Cite:Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta.
J.Biol.Chem., 294, 2019
6NKZ
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BU of 6nkz by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma methylene dGTP
Descriptor: 2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*TP*(2DT))-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.01 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6MR7
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BU of 6mr7 by Molmil
DNA polymerase beta substrate complex with templating adenine and incoming Fapy-dGTP analog
Descriptor: 1,2-ETHANEDIOL, 1-[2-amino-5-(formylamino)-6-oxo-1,6-dihydropyrimidin-4-yl]-2,5-anhydro-1,3-dideoxy-6-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-D-ribo-hexitol, CALCIUM ION, ...
Authors:Freudenthal, B.D, Smith, M.R, Wilson, S.H, Beard, W.A.
Deposit date:2018-10-11
Release date:2019-01-30
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.144 Å)
Cite:A guardian residue hinders insertion of a Fapy•dGTP analog by modulating the open-closed DNA polymerase transition.
Nucleic Acids Res., 47, 2019
6NKT
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BU of 6nkt by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with beta-gamma difluoro analogue of dGTP
Descriptor: 2'-DEOXY-5'-O-[({[DIFLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL}OXY)(HYDROXY)PHOSPHORYL]GUANOSINE, DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(DOC))-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NKY
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BU of 6nky by Molmil
Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CHF analogue of dGTP
Descriptor: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.094 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
6NKV
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BU of 6nkv by Molmil
Ternary complex crystal structure of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CHF analogue of dGTP
Descriptor: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Batra, V.K, Wilson, S.H.
Deposit date:2019-01-07
Release date:2020-01-08
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography.
Biochemistry, 59, 2020
3C2K
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BU of 3c2k by Molmil
DNA POLYMERASE BETA with a gapped DNA substrate and DUMPNPP with Manganese in the active site
Descriptor: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DAP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), ...
Authors:Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H.
Deposit date:2008-01-25
Release date:2008-05-20
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation.
Mol.Cell, 30, 2008
3C2M
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BU of 3c2m by Molmil
Ternary complex of DNA POLYMERASE BETA with a G:dAPCPP mismatch in the active site
Descriptor: 1,2-ETHANEDIOL, 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DGP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), ...
Authors:Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H.
Deposit date:2008-01-25
Release date:2008-05-20
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation.
Mol.Cell, 30, 2008
3C2L
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BU of 3c2l by Molmil
Ternary complex of DNA POLYMERASE BETA with a C:DAPCPP mismatch in the active site
Descriptor: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DCP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), DNA (5'-D(*DGP*DCP*DTP*DGP*DAP*DTP*DGP*DCP*DGP*DC)-3'), ...
Authors:Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H.
Deposit date:2008-01-25
Release date:2008-05-20
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation.
Mol.Cell, 30, 2008
4LVS
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BU of 4lvs by Molmil
DNA polymerase beta mismatched substrate complex with Mn2+, 2.5 min
Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ...
Authors:Freudenthal, B.D, Beard, W.A, Shock, D.D, Wilson, S.H.
Deposit date:2013-07-26
Release date:2013-09-04
Last modified:2023-09-20
Method:X-RAY DIFFRACTION (2.002 Å)
Cite:Observing a DNA polymerase choose right from wrong.
Cell(Cambridge,Mass.), 154, 2013
1BPZ
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BU of 1bpz by Molmil
HUMAN DNA POLYMERASE BETA COMPLEXED WITH NICKED DNA
Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*CP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*G)-3'), DNA (5'-D(*GP*TP*CP*GP*G)-3'), ...
Authors:Sawaya, M.R, Prasad, R, Wilson, S.H, Kraut, J, Pelletier, H.
Deposit date:1997-04-14
Release date:1997-06-16
Last modified:2023-08-02
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Crystal structures of human DNA polymerase beta complexed with gapped and nicked DNA: evidence for an induced fit mechanism.
Biochemistry, 36, 1997
1BPY
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BU of 1bpy by Molmil
HUMAN DNA POLYMERASE BETA COMPLEXED WITH GAPPED DNA AND DDCTP
Descriptor: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE, DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*DOC)-3'), ...
Authors:Sawaya, M.R, Pelletier, H, Prasad, R, Wilson, S.H, Kraut, J.
Deposit date:1997-04-15
Release date:1997-06-16
Last modified:2023-08-02
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structures of human DNA polymerase beta complexed with gapped and nicked DNA: evidence for an induced fit mechanism.
Biochemistry, 36, 1997
1BPX
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BU of 1bpx by Molmil
DNA POLYMERASE BETA/DNA COMPLEX
Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(*GP*TP*CP*GP*G)-3'), ...
Authors:Sawaya, M.R, Prasad, R, Wilson, S.H, Kraut, J, Pelletier, H.
Deposit date:1997-04-11
Release date:1997-06-16
Last modified:2023-08-02
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structures of human DNA polymerase beta complexed with gapped and nicked DNA: evidence for an induced fit mechanism.
Biochemistry, 36, 1997

226262

数据于2024-10-16公开中

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