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PDB: 265 results

2XY6
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Crystal structure of a salicylic aldehyde basepair in complex with fragment DNA polymerase I from Bacillus stearothermophilus
Descriptor: (4R)-2-METHYLPENTANE-2,4-DIOL, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 5'-D(*AP*GP*GP*GP*AP*SAYP*GP*GP*TP*CP)-3', ...
Authors:Kaul, C, Mueller, M, Wagner, M, Schneider, S, Carell, T.
Deposit date:2010-11-15
Release date:2011-07-27
Last modified:2023-12-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Reversible Bond Formation Enables the Replication and Amplification of a Crosslinking Salen Complex as an Orthogonal Base Pair.
Nature Chem., 3, 2011
2Y1J
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BU of 2y1j by Molmil
CRYSTAL STRUCTURE OF A R-DIASTEREOMER ANALOGUE OF THE SPORE PHOTOPRODUCT IN COMPLEX WITH FRAGMENT DNA POLYMERASE I FROM BACILLUS STEAROTHERMOPHILUS
Descriptor: 5'-D(*AP*GP*GP*GP*QBTP*THM*GP*GP*TP*CP)-3', 5'-D(*GP*AP*CP*CP*AP*AP*CP*CP*CP*TP)-3', DNA POLYMERASE I, ...
Authors:Heil, K, Schneider, S, Mueller, M, Kneuttinger, A.C, Carell, T.
Deposit date:2010-12-08
Release date:2011-07-27
Last modified:2023-12-20
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Crystal Structures and Repair Studies Reveal the Identity and the Base-Pairing Properties of the Uv-Induced Spore Photoproduct DNA Lesion.
Chemistry, 17, 2011
6MU4
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BU of 6mu4 by Molmil
Bst DNA polymerase I FANA/DNA binary complex
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(P*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA polymerase I, ...
Authors:Jackson, L.N, Chim, N, Chaput, J.C.
Deposit date:2018-10-22
Release date:2019-06-05
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.62 Å)
Cite:Crystal structures of a natural DNA polymerase that functions as an XNA reverse transcriptase.
Nucleic Acids Res., 47, 2019
2Y1I
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BU of 2y1i by Molmil
Crystal structure of a S-diastereomer analogue of the spore photoproduct in complex with fragment DNA polymerase I from Bacillus stearothermophilus
Descriptor: 5'-D(*AP*GP*GP*GP*PBTP*THM*GP*GP*TP*CP)-3', 5'-D(*GP*AP*CP*CP*AP*AP*CP*CP*CP*TP)-3', DNA POLYMERASE I, ...
Authors:Heil, K, Schneider, S, Mueller, M, Kneuttinger, A.C, Carell, T.
Deposit date:2010-12-08
Release date:2011-07-27
Last modified:2023-12-20
Method:X-RAY DIFFRACTION (2.78 Å)
Cite:Crystal Structures and Repair Studies Reveal the Identity and the Base-Pairing Properties of the Uv-Induced Spore Photoproduct DNA Lesion.
Chemistry, 17, 2011
6MU5
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BU of 6mu5 by Molmil
Bst DNA polymerase I TNA/DNA binary complex
Descriptor: DNA (5'-D(P*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA polymerase I, SULFATE ION, ...
Authors:Jackson, L.N, Chim, N, Chaput, J.C.
Deposit date:2018-10-22
Release date:2019-06-05
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.912 Å)
Cite:Crystal structures of a natural DNA polymerase that functions as an XNA reverse transcriptase.
Nucleic Acids Res., 47, 2019
2XO7
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BU of 2xo7 by Molmil
Crystal structure of a dA:O-allylhydroxylamine-dC basepair in complex with fragment DNA polymerase I from Bacillus stearothermophilus
Descriptor: 5'-D(*AP*GP*GP*AP*AP*TP*GP*GP*TP*CP*A)-3', 5'-D(*GP*AP*CP*CP*AP*TP*47C*CP*CP*T)-3', DNA POLYMERASE I, ...
Authors:Muenzel, M, Lercher, L, Mueller, M, Carell, T.
Deposit date:2010-08-10
Release date:2010-09-15
Last modified:2023-12-20
Method:X-RAY DIFFRACTION (2.85 Å)
Cite:Chemical Discrimination between Dc and 5Medc Via Their Hydroxylamine Adducts
Nucleic Acids Res., 38, 2010
7K5R
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BU of 7k5r by Molmil
Bst DNA polymerase I time-resolved structure, 120 min post dATP addition
Descriptor: DNA (5'-D(P*GP*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
7K5Q
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BU of 7k5q by Molmil
Bst DNA polymerase I time-resolved structure, 8 min post dATP addition
Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(P*G*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
7K5T
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BU of 7k5t by Molmil
Bst DNA polymerase I time-resolved structure, 25.5 hr post dATP and dCTP addition
Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(P*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
7K5U
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BU of 7k5u by Molmil
Bst DNA polymerase I time-resolved structure, 48 hr post dATP and dCTP addition
Descriptor: DNA (5'-D(P*CP*GP*AP*TP*CP*AP*CP*GP*TP*AP*C)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), DNA polymerase I, ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
7K5P
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BU of 7k5p by Molmil
Bst DNA polymerase I time-resolved structure, 4 min post dATP addition
Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.97 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
7K5S
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BU of 7k5s by Molmil
Bst DNA polymerase I time-resolved structure, 4 hr post dATP and dCTP addition
Descriptor: DNA (5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*AP*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), DNA polymerase I, ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (1.67 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
7K5O
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BU of 7k5o by Molmil
Bst DNA polymerase I time-resolved structure, 1 min post dATP addition
Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ...
Authors:Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C.
Deposit date:2020-09-17
Release date:2021-03-03
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.16 Å)
Cite:Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
6UEU
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BU of 6ueu by Molmil
Crystal structure of BF DNA polymerase F710Y mutant bound to tetrahydrofuran and dATP
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*CP*GP*(3DR)P*AP*CP*GP*TP*GP*AP*TP*CP*G)-3'), ...
Authors:Wu, E.Y, Beese, L.S.
Deposit date:2019-09-23
Release date:2020-09-30
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural basis for blockage of DNA synthesis by a thymine dimer lesion in a high-fidelity DNA polymerase
To Be Published
6UR2
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BU of 6ur2 by Molmil
DNA polymerase I Large Fragment from Bacillus stearothermophilus with DNA template and primer containing an N3'-> P5' linkage
Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*(C42)P*G)-3'), DNA (5'-D(P*AP*CP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I
Authors:Zhang, W, Lelyveld, V.S, Szostak, J.W.
Deposit date:2019-10-21
Release date:2020-03-18
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.27 Å)
Cite:Synthesis of phosphoramidate-linked DNA by a modified DNA polymerase.
Proc.Natl.Acad.Sci.USA, 117, 2020
6UR4
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BU of 6ur4 by Molmil
DNA polymerase I Large Fragment from Bacillus stearothermophilus with DNA template and 3'-amino primer
Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*(C42))-3'), DNA (5'-D(P*CP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I
Authors:Zhang, W, Lelyveld, V.S, Szostak, J.W.
Deposit date:2019-10-22
Release date:2020-03-18
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Synthesis of phosphoramidate-linked DNA by a modified DNA polymerase.
Proc.Natl.Acad.Sci.USA, 117, 2020
6VDD
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BU of 6vdd by Molmil
POL domain of Pol1 from M. smegmatis complex with DNA primer-template and dNTP
Descriptor: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE, DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*TP*A*(DCT))-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ...
Authors:Shuman, S, Goldgur, Y, Ghosh, S.
Deposit date:2019-12-24
Release date:2020-02-12
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Mycobacterial DNA polymerase I: activities and crystal structures of the POL domain as apoenzyme and in complex with a DNA primer-template and of the full-length FEN/EXO-POL enzyme.
Nucleic Acids Res., 48, 2020
6UR9
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BU of 6ur9 by Molmil
DNA polymerase I Large Fragment from Bacillus stearothermophilus with DNA template, dideoxy primer, 3'-amino-ddGTP (nGTP), and Ca2+
Descriptor: 3'-amino-2',3'-dideoxyguanosine 5'-(tetrahydrogen triphosphate), CALCIUM ION, DNA (5'-D(*CP*AP*CP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ...
Authors:Zhang, W, Lelyveld, V.S, Szostak, J.W.
Deposit date:2019-10-22
Release date:2020-03-18
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Synthesis of phosphoramidate-linked DNA by a modified DNA polymerase.
Proc.Natl.Acad.Sci.USA, 117, 2020
6US5
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BU of 6us5 by Molmil
DNA polymerase I Large Fragment from Bacillus stearothermophilus with DNA template, 3'-amino primer, dGpNHpp analog, and Mn2+
Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*CP*AP*CP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*(C42))-3'), ...
Authors:Zhang, W, Lelyveld, V.S, Szostak, J.W.
Deposit date:2019-10-24
Release date:2020-03-18
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Synthesis of phosphoramidate-linked DNA by a modified DNA polymerase.
Proc.Natl.Acad.Sci.USA, 117, 2020
6VDC
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BU of 6vdc by Molmil
POL domain of Pol1 from M. smegmatis
Descriptor: DNA polymerase I, MANGANESE (II) ION
Authors:Shuman, S, Goldgur, Y, Ghosh, S.
Deposit date:2019-12-24
Release date:2020-02-12
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.402 Å)
Cite:Mycobacterial DNA polymerase I: activities and crystal structures of the POL domain as apoenzyme and in complex with a DNA primer-template and of the full-length FEN/EXO-POL enzyme.
Nucleic Acids Res., 48, 2020
2HHT
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BU of 2hht by Molmil
C:O6-methyl-guanine pair in the polymerase-2 basepair position
Descriptor: 5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*CP*TP*CP*G)-3', 5'-D(*GP*TP*AP*CP*(6OG)P*AP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3', DNA polymerase I, ...
Authors:Warren, J.J, Forsberg, L.J, Beese, L.S.
Deposit date:2006-06-28
Release date:2006-12-12
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:The structural basis for the mutagenicity of O6-methyl-guanine lesions.
Proc.Natl.Acad.Sci.Usa, 103, 2006
2HHW
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BU of 2hhw by Molmil
ddTTP:O6-methyl-guanine pair in the polymerase active site, in the closed conformation
Descriptor: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, 5'-D(*CP*AP*TP*(6OG)P*CP*GP*AP*GP*TP*CP*AP*GP*G)-3', 5'-D(*CP*CP*TP*GP*AP*CP*TP*CP*(DDG))-3', ...
Authors:Warren, J.J, Forsberg, L.J, Beese, L.S.
Deposit date:2006-06-28
Release date:2006-12-12
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (1.88 Å)
Cite:The structural basis for the mutagenicity of O6-methyl-guanine lesions.
Proc.Natl.Acad.Sci.Usa, 103, 2006
2HHS
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BU of 2hhs by Molmil
O6-methyl:C pair in the polymerase-10 basepair position
Descriptor: 5'-D(*CP*AP*TP*(6OG)P*CP*GP*AP*GP*TP*CP*AP*GP*G)-3', 5'-D(*CP*CP*TP*GP*AP*CP*TP*CP*GP*CP*AP*TP*GP*A)-3', DNA polymerase I, ...
Authors:Warren, J.J, Forsberg, L.J, Beese, L.S.
Deposit date:2006-06-28
Release date:2006-12-12
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:The structural basis for the mutagenicity of O6-methyl-guanine lesions.
Proc.Natl.Acad.Sci.Usa, 103, 2006
2HHQ
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BU of 2hhq by Molmil
O6-methyl-guanine:T pair in the polymerase-10 basepair position
Descriptor: 5'-D(*CP*AP*TP*(6OG)P*CP*GP*AP*GP*TP*CP*AP*GP*G)-3', 5'-D(*GP*CP*CP*TP*GP*AP*CP*TP*CP*GP*TP*AP*TP*GP*A)-3', DNA polymerase I, ...
Authors:Warren, J.J, Forsberg, L.J, Beese, L.S.
Deposit date:2006-06-28
Release date:2006-12-12
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:The structural basis for the mutagenicity of O6-methyl-guanine lesions.
Proc.Natl.Acad.Sci.Usa, 103, 2006
2HHU
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BU of 2hhu by Molmil
C:O6-methyl-guanine in the polymerase postinsertion site (-1 basepair position)
Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*CP*CP*C)-3', 5'-D(*GP*TP*AP*CP*(6OG)P*GP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3', ...
Authors:Warren, J.J, Forsberg, L.J, Beese, L.S.
Deposit date:2006-06-28
Release date:2006-12-12
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:The structural basis for the mutagenicity of O6-methyl-guanine lesions.
Proc.Natl.Acad.Sci.Usa, 103, 2006

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數據於2024-06-19公開中

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