PDB: 266 resultsInfo pagesStatus searchChemie searchBIRD

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4B9V	Structure of the high fidelity DNA polymerase I with extending from an oxidative formamidopyrimidine-dG DNA lesion -dA basepair. Descriptor: 5'-D(*CP*AP*TP*FOXP*AP*GP*AP*GP*TP*CP*AP*GP*GP*CP*TP)-3', 5'-D(*CP*CP*TP*GP*AP*CP*TP*CP*TP*AP*AP)-3', DNA POLYMERASE, ... Authors: Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. Deposit date: 2012-09-06 Release date: 2013-04-17 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2 Å) Cite: Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
4B9S	Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion outside of the pre-insertion site. Descriptor: 5'-D(*AP*CP*CP*TP*GP*AP*CP*TP*CP*TP)-3', 5'-D(*CP*AP*TP*FOXP*AP*GP*AP*GP*TP*CP*AP*GP*GP*TP*TP)-3', DNA POLYMERASE, ... Authors: Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. Deposit date: 2012-09-06 Release date: 2013-04-17 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (1.73 Å) Cite: Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
4BDP	CRYSTAL STRUCTURE OF BACILLUS DNA POLYMERASE I FRAGMENT COMPLEXED TO 11 BASE PAIRS OF DUPLEX DNA AFTER ADDITION OF TWO DATP RESIDUES Descriptor: DNA (5'-D(*GP*CP*AP*TP*CP*AP*TP*GP*CP*AP*A)-3'), DNA (5'-D(*TP*AP*TP*TP*GP*CP*AP*TP*GP*AP*TP*GP*C)-3'), MAGNESIUM ION, ... Authors: Kiefer, J.R, Mao, C, Beese, L.S. Deposit date: 1997-11-17 Release date: 1999-01-13 Last modified: 2023-08-02 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Visualizing DNA replication in a catalytically active Bacillus DNA polymerase crystal. Nature, 391, 1998
4XVM	Binary complex of human polymerase nu and DNA with the finger domain closed and thumb domain rotated out Descriptor: DNA (5'-D(*CP*TP*AP*GP*CP*GP*TP*CP*A)-3'), DNA (5'-D(*GP*AP*TP*CP*TP*GP*AP*CP*GP*CP*TP*AP*G)-3'), DNA polymerase nu Authors: Lee, Y.-S, Yang, W. Deposit date: 2015-01-27 Release date: 2015-03-11 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (3.2 Å) Cite: How a homolog of high-fidelity replicases conducts mutagenic DNA synthesis. Nat.Struct.Mol.Biol., 22, 2015
4XVI	Binary complex of human polymerase nu and DNA with the finger domain ajar Descriptor: DNA (5'-D(*AP*CP*TP*CP*TP*GP*AP*CP*GP*CP*TP*AP*GP*G)-3'), DNA (5'-D(*CP*CP*TP*AP*GP*CP*GP*TP*CP*AP*G)-3'), DNA polymerase nu Authors: Lee, Y.-S, Yang, W. Deposit date: 2015-01-27 Release date: 2015-03-11 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (3.1 Å) Cite: How a homolog of high-fidelity replicases conducts mutagenic DNA synthesis. Nat.Struct.Mol.Biol., 22, 2015
4XIU	Binary complex structure of Klenow fragment of Taq DNA polymerase I707L mutant with DNA containing TTT overhang Descriptor: DNA polymerase I, thermostable, MAGNESIUM ION, ... Authors: Wu, E.Y. Deposit date: 2015-01-07 Release date: 2015-01-21 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.5 Å) Cite: A Conservative Isoleucine to Leucine Mutation Causes Major Rearrangements and Cold Sensitivity in KlenTaq1 DNA Polymerase. Biochemistry, 54, 2015
4XVK	Binary complex of human polymerase nu and DNA with the finger domain closed Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, DNA (5'-D(*GP*AP*TP*CP*TP*GP*AP*CP*GP*CP*TP*AP*CP*GP*G)-3'), DNA (5'-D(*TP*CP*CP*GP*TP*AP*GP*CP*GP*TP*CP*A)-3'), ... Authors: Lee, Y.-S, Yang, W. Deposit date: 2015-01-27 Release date: 2015-03-11 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.95 Å) Cite: How a homolog of high-fidelity replicases conducts mutagenic DNA synthesis. Nat.Struct.Mol.Biol., 22, 2015
4XVL	Binary complex of human polymerase nu and DNA with the finger domain open Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, DNA (5'-D(*GP*AP*TP*CP*TP*GP*AP*CP*GP*CP*TP*AP*CP*G)-3'), DNA (5'-D(*TP*CP*GP*TP*AP*GP*CP*GP*TP*CP*A)-3'), ... Authors: Lee, Y.-S, Yang, W. Deposit date: 2015-01-27 Release date: 2015-03-11 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (3.301 Å) Cite: How a homolog of high-fidelity replicases conducts mutagenic DNA synthesis. Nat.Struct.Mol.Biol., 22, 2015
4YFU	Crystal structure of open Bacillus fragment DNA polymerase bound to DNA and dTTP Descriptor: DNA polymerase, Primer DNA, SULFATE ION, ... Authors: Wu, E.Y. Deposit date: 2015-02-25 Release date: 2015-07-22 Last modified: 2022-04-13 Method: X-RAY DIFFRACTION (1.5 Å) Cite: The Closing Mechanism of DNA Polymerase I at Atomic Resolution. Structure, 23, 2015
1QSS	DDGTP-TRAPPED CLOSED TERNARY COMPLEX OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS Descriptor: 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*AP*CP*CP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3', 5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DDG))-3', ... Authors: Li, Y, Mitaxov, V, Waksman, G. Deposit date: 1999-06-23 Release date: 1999-08-16 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structure-based design of Taq DNA polymerases with improved properties of dideoxynucleotide incorporation. Proc.Natl.Acad.Sci.USA, 96, 1999
2XY7	Crystal structure of a salicylic aldehyde base in the pre-insertion site of fragment DNA polymerase I from Bacillus stearothermophilus Descriptor: 5'-D(*GP*CP*CP*TP*GP*AP*CP*TP*CP*GP)-3', 5'-D(*SAYP*CP*GP*AP*GP*TP*CP*AP*GP*GP*CP)-3', DNA POLYMERASE I, ... 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 (3.05 Å) Cite: Reversible Bond Formation Enables the Replication and Amplification of a Crosslinking Salen Complex as an Orthogonal Base Pair. Nature Chem., 3, 2011
3KTQ	CRYSTAL STRUCTURE OF AN ACTIVE TERNARY COMPLEX OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS Descriptor: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE, DNA (5'-D(*AP*GP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*DOC)-3'), ... Authors: Li, Y, Waksman, G. Deposit date: 1998-07-28 Release date: 1999-01-13 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: structural basis for nucleotide incorporation. EMBO J., 17, 1998
2XY6	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	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
1QTM	DDTTP-TRAPPED CLOSED TERNARY COMPLEX OF THE LARGE FRAGMENT OF DNA POLYMERASE I FROM THERMUS AQUATICUS Descriptor: 5'-D(*AP*AP*AP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3', 5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DT))-3', DNA POLYMERASE I, ... Authors: Li, Y, Mitaxov, V, Waksman, G. Deposit date: 1999-06-28 Release date: 1999-08-16 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structure-based design of Taq DNA polymerases with improved properties of dideoxynucleotide incorporation. Proc.Natl.Acad.Sci.USA, 96, 1999
2XO7	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
3LWM	Structure of the large fragment of thermus aquaticus DNA polymerase I in complex with a blunt-ended DNA and ddATP Descriptor: 2',3'-dideoxyadenosine triphosphate, ACETATE ION, DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3'), ... Authors: Marx, A, Diederichs, K, Obeid, S. Deposit date: 2010-02-24 Release date: 2010-05-05 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (2.186 Å) Cite: Replication through an abasic DNA lesion: structural basis for adenine selectivity Embo J., 29, 2010
2XY5	Crystal structure of an artificial salen-copper basepair in complex with fragment DNA polymerase I from Bacillus stearothermophilus Descriptor: (4R)-2-METHYLPENTANE-2,4-DIOL, 5'-D(*AP*GP*GP*GP*AP*SAYP*GP*GP*TP*CP)-3', 5'-D(*GP*AP*CP*CP*SAYP*TP*CP*CP*CP*TP)-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 (2.22 Å) Cite: Reversible Bond Formation Enables the Replication and Amplification of a Crosslinking Salen Complex as an Orthogonal Base Pair. Nature Chem., 3, 2011
3HT3	Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus V713P mutant bound to G:dCTP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*CP*GP*GP*CP*GP*TP*GP*AP*TP*CP*G)-3', 5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*(DOC))-3', ... Authors: Wu, E.Y, Beese, L.S. Deposit date: 2009-06-11 Release date: 2010-07-14 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.7 Å) Cite: The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism. J.Biol.Chem., 286, 2011
3HPO	Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus Y714S mutant bound to G:T mismatch Descriptor: 5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*(DOC))-3', 5'-D(P*GP*GP*CP*GP*TP*GP*AP*TP*CP*G)-3', DNA polymerase I, ... Authors: Wu, E.Y, Beese, L.S. Deposit date: 2009-06-04 Release date: 2010-06-23 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.75 Å) Cite: The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism. J.Biol.Chem., 286, 2011
3HP6	Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus F710Y mutant bound to G:T mismatch Descriptor: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*CP*GP*CP*CP*GP*TP*GP*AP*TP*CP*G)-3', 5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*(DDG))-3', ... Authors: Wu, E.Y, Beese, L.S. Deposit date: 2009-06-03 Release date: 2010-06-23 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.81 Å) Cite: The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism. J.Biol.Chem., 286, 2011
2Y1I	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
1NK7	GUANINE-ADENINE MISMATCH AT THE POLYMERASE ACTIVE SITE Descriptor: DNA POLYMERASE I, DNA PRIMER STRAND, DNA TEMPLATE STRAND, ... Authors: Johnson, S.J, Beese, L.S. Deposit date: 2003-01-02 Release date: 2004-03-30 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Structures of mismatch replication errors observed in a DNA polymerase. Cell(Cambridge,Mass.), 116, 2004
1NKE	A BACILLUS DNA POLYMERASE I PRODUCT COMPLEX BOUND TO A CYTOSINE-THYMINE MISMATCH AFTER A SINGLE ROUND OF PRIMER EXTENSION, FOLLOWING INCORPORATION OF DCTP. Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA POLYMERASE I, DNA PRIMER STRAND, ... Authors: Johnson, S.J, Beese, L.S. Deposit date: 2003-01-02 Release date: 2004-03-30 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Structures of mismatch replication errors observed in a DNA polymerase. Cell(Cambridge,Mass.), 116, 2004
3LWL	Structure of Klenow fragment of Taq polymerase in complex with an abasic site Descriptor: 2',3'-dideoxyadenosine triphosphate, ACETATE ION, DNA (5'-D(*AP*AP*AP*(3DR)P*TP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), ... Authors: Marx, A, Diederichs, K, Obeid, S. Deposit date: 2010-02-24 Release date: 2010-05-05 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (2.25 Å) Cite: Replication through an abasic DNA lesion: structural basis for adenine selectivity Embo J., 29, 2010

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