3UGM
| Structure of TAL effector PthXo1 bound to its DNA target | Descriptor: | DNA-1, DNA-2, TAL effector AvrBs3/PthA | Authors: | Mak, A.N.S, Bradley, P, Cernadas, R.A, Bogdanove, A.J, Stoddard, B.L. | Deposit date: | 2011-11-02 | Release date: | 2012-01-04 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | The Crystal Structure of TAL Effector PthXo1 Bound to Its DNA Target. Science, 335, 2012
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5TGX
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4P4O
| Crystal structure of Leishmania infantum polymerase beta: Ternary gap complex | Descriptor: | 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*GP*TP*AP*T)-3'), DNA (5'-D(P*CP*GP*GP*CP*AP*AP*TP*AP*CP*TP*G)-3'), ... | Authors: | Mejia, E, Burak, M, Alonso, A, Larraga, V, Kunkel, T, Bebenek, K, Garcia-Diaz, M. | Deposit date: | 2014-03-12 | Release date: | 2014-08-06 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.3001 Å) | Cite: | Structures of the Leishmania infantum polymerase beta. DNA Repair (Amst.), 18, 2014
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3MFH
| DNA Polymerase Eta in Complex With Undamaged DNA | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*TP*CP*CP*TP*CP*CP*CP*CP*TP*(DOC))-3', 5'-D(*TP*AP*AP*TP*TP*GP*AP*GP*GP*GP*GP*AP*GP*GP*AP*C)-3', ... | Authors: | Silverstein, T.D, Johnson, R.E, Jain, R, Prakash, L, Prakash, S, Aggarwal, A.K. | Deposit date: | 2010-04-02 | Release date: | 2010-06-23 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis for the suppression of skin cancers by DNA polymerase eta. Nature, 465, 2010
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5L06
| Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 3rd Position | Descriptor: | DNA (5'-D(*CP*GP*(5CM)P*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') | Authors: | Miears, H.L, Hoppins, J.J, Gruber, D.R, Kasymov, R.D, Zharkov, D.O, Smirnov, S.L. | Deposit date: | 2016-07-26 | Release date: | 2016-12-21 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation. Nucleic Acids Res., 46, 2018
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7L4C
| Crystal structure of the DRM2-CTT DNA complex | Descriptor: | DNA (5'-D(*AP*TP*TP*AP*TP*TP*AP*AP*TP*(C49)P*TP*TP*AP*AP*TP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*AP*TP*TP*AP*AP*GP*AP*TP*TP*AP*AP*TP*AP*AP*T)-3'), DNA (cytosine-5)-methyltransferase DRM2, ... | Authors: | Fang, J, Song, J. | Deposit date: | 2020-12-18 | Release date: | 2021-08-04 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.11 Å) | Cite: | Substrate deformation regulates DRM2-mediated DNA methylation in plants. Sci Adv, 7, 2021
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7L4H
| Crystal structure of the DRM2-CTG DNA complex | Descriptor: | DNA (5'-D(*AP*TP*TP*CP*CP*TP*AP*AP*TP*(C49)P*TP*GP*AP*AP*TP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*AP*TP*TP*CP*AP*GP*AP*TP*TP*AP*GP*GP*AP*AP*T)-3'), DNA (cytosine-5)-methyltransferase DRM2, ... | Authors: | Fang, J, Song, J. | Deposit date: | 2020-12-19 | Release date: | 2021-08-04 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.56 Å) | Cite: | Substrate deformation regulates DRM2-mediated DNA methylation in plants. Sci Adv, 7, 2021
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7L4K
| Crystal structure of the DRM2-CCG DNA complex | Descriptor: | DNA (5'-D(*AP*TP*TP*CP*CP*TP*AP*AP*TP*(C49)P*CP*GP*AP*AP*TP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*AP*TP*TP*CP*GP*GP*AP*TP*TP*AP*GP*GP*AP*AP*T)-3'), DNA (cytosine-5)-methyltransferase DRM2, ... | Authors: | Fang, J, Song, J. | Deposit date: | 2020-12-19 | Release date: | 2021-08-04 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.61 Å) | Cite: | Substrate deformation regulates DRM2-mediated DNA methylation in plants. Sci Adv, 7, 2021
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7L4N
| Crystal structure of the DRM2 (C397R)-CCG DNA complex | Descriptor: | DNA (5'-D(*AP*TP*TP*CP*CP*TP*AP*AP*TP*(C49)P*CP*GP*AP*AP*TP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*AP*TP*TP*CP*GP*GP*AP*TP*TP*AP*GP*GP*AP*AP*T)-3'), DNA (cytosine-5)-methyltransferase DRM2, ... | Authors: | Fang, J, Song, J. | Deposit date: | 2020-12-19 | Release date: | 2021-08-04 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.247 Å) | Cite: | Substrate deformation regulates DRM2-mediated DNA methylation in plants. Sci Adv, 7, 2021
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7L4M
| Crystal structure of the DRM2-CCT DNA complex | Descriptor: | DNA (5'-D(*TP*AP*AP*AP*GP*GP*AP*GP*GP*AP*GP*GP*AP*GP*GP*AP*AP*T)-3'), DNA (5'-D(P*AP*TP*TP*CP*CP*TP*CP*CP*TP*(C49)P*CP*TP*CP*CP*TP*TP*TP*A)-3'), DNA (cytosine-5)-methyltransferase DRM2, ... | Authors: | Fang, J, Song, J. | Deposit date: | 2020-12-19 | Release date: | 2021-08-04 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.805 Å) | Cite: | Substrate deformation regulates DRM2-mediated DNA methylation in plants. Sci Adv, 7, 2021
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5L2G
| Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 9th Position | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5CM)P*GP*CP*G)-3') | Authors: | Miears, H.L, Hoppins, J.J, Gruber, D.R, Kasymov, R.D, Johnson, E.C, Zharkov, D.O, Smirnov, S.L. | Deposit date: | 2016-08-01 | Release date: | 2016-12-21 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation. Nucleic Acids Res., 46, 2018
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5W9Q
| Zinc finger region of MBD1 in complex with CpG DNA | Descriptor: | Methyl-CpG-binding domain protein 1, UNKNOWN ATOM OR ION, ZINC ION, ... | Authors: | Liu, K, Xu, C, Tempel, W, Walker, J.R, Arrowsmith, C.H, Bountra, C, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) | Deposit date: | 2017-06-23 | Release date: | 2017-10-18 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | DNA Sequence Recognition of Human CXXC Domains and Their Structural Determinants. Structure, 26, 2018
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4P4M
| Crystal structure of Leishmania infantum polymerase beta: Ternary P/T complex | Descriptor: | 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*GP*TP*A)-3'), DNA (5'-D(P*AP*TP*AP*CP*TP*G)-3'), ... | Authors: | Mejia, E, Burak, M, Alonso, A, Larraga, V, Kunkel, T.A, Bebenek, K, Garcia-Diaz, M. | Deposit date: | 2014-03-12 | Release date: | 2014-08-06 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (1.9185 Å) | Cite: | Structures of the Leishmania infantum polymerase beta. DNA Repair (Amst.), 18, 2014
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221D
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1WAF
| DNA POLYMERASE FROM BACTERIOPHAGE RB69 | Descriptor: | DNA POLYMERASE, GUANOSINE | Authors: | Wang, J, Satter, A.K.M.A, Wang, C.C, Karam, J.D, Konigsberg, W.H, Steitz, T.A. | Deposit date: | 1997-04-13 | Release date: | 1998-01-14 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Crystal structure of a pol alpha family replication DNA polymerase from bacteriophage RB69. Cell(Cambridge,Mass.), 89, 1997
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1WAJ
| DNA POLYMERASE FROM BACTERIOPHAGE RB69 | Descriptor: | DNA POLYMERASE, GUANOSINE-5'-MONOPHOSPHATE | Authors: | Wang, J, Satter, A.K.M.A, Wang, C.C, Karam, J.D, Konigsberg, W.H, Steitz, T.A. | Deposit date: | 1997-04-13 | Release date: | 1998-01-14 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal structure of a pol alpha family replication DNA polymerase from bacteriophage RB69. Cell(Cambridge,Mass.), 89, 1997
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3AU6
| DNA polymerase X from Thermus thermophilus HB8 ternary complex with primer/template DNA and ddGTP | Descriptor: | 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*CP*AP*GP*TP*AP*TP*(DDG))-3', 5'-D(*CP*GP*GP*CP*CP*AP*TP*AP*CP*TP*G)-3', ... | Authors: | Nakane, S, Masui, R, Kuramitsu, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2011-01-28 | Release date: | 2012-01-25 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | The structural basis of the kinetic mechanism of a gap-filling X-family DNA polymerase that binds Mg(2+)-dNTP before binding to DNA. J.Mol.Biol., 417, 2012
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1G1N
| NICKED DECAMER DNA WITH PEG6 TETHER, NMR, 30 STRUCTURES | Descriptor: | 5'-D(*GP*TP*CP*GP*C)-3', 5'-D(P*GP*CP*GP*AP*CP*AP*AP*CP*GP*C)-3', 5'-D(P*GP*CP*GP*TP*T)-3', ... | Authors: | Bocian, W, Kozerski, L, Mazurek, A.P, Kawecki, R. | Deposit date: | 2000-10-13 | Release date: | 2001-03-14 | Last modified: | 2024-05-22 | Method: | SOLUTION NMR | Cite: | A nicked duplex decamer DNA with a PEG(6) tether. Nucleic Acids Res., 29, 2001
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3AUO
| DNA polymerase X from Thermus thermophilus HB8 ternary complex with 1-nt gapped DNA and ddGTP | Descriptor: | 1-nt gapped DNA, 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase beta family (X family), ... | Authors: | Nakane, S, Nakagawa, N, Masui, R, Kuramitsu, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2011-02-11 | Release date: | 2012-01-25 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | The structural basis of the kinetic mechanism of a gap-filling X-family DNA polymerase that binds Mg(2+)-dNTP before binding to DNA. J.Mol.Biol., 417, 2012
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1T38
| HUMAN O6-ALKYLGUANINE-DNA ALKYLTRANSFERASE BOUND TO DNA CONTAINING O6-METHYLGUANINE | Descriptor: | 5'-D(*GP*CP*CP*AP*TP*GP*(6OG)P*CP*TP*AP*GP*TP*A)-3', 5'-D(*TP*AP*CP*TP*AP*GP*CP*CP*AP*TP*GP*GP*C)-3', Methylated-DNA--protein-cysteine methyltransferase | Authors: | Daniels, D.S, Woo, T.T, Luu, K.X, Noll, D.M, Clarke, N.D, Pegg, A.E, Tainer, J.A. | Deposit date: | 2004-04-25 | Release date: | 2004-07-13 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | DNA binding and nucleotide flipping by the human DNA repair protein AGT. Nat.Struct.Mol.Biol., 11, 2004
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1T39
| HUMAN O6-ALKYLGUANINE-DNA ALKYLTRANSFERASE COVALENTLY CROSSLINKED TO DNA | Descriptor: | 5'-D(*GP*CP*CP*AP*TP*GP*(E1X)P*CP*TP*AP*GP*TP*A)-3', 5'-D(*TP*AP*CP*TP*AP*GP*CP*CP*AP*TP*GP*GP*C)-3', Methylated-DNA--protein-cysteine methyltransferase | Authors: | Daniels, D.S, Woo, T.T, Luu, K.X, Noll, D.M, Clarke, N.D, Pegg, A.E, Tainer, J.A. | Deposit date: | 2004-04-25 | Release date: | 2004-07-13 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | DNA binding and nucleotide flipping by the human DNA repair protein AGT. Nat.Struct.Mol.Biol., 11, 2004
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6MHT
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1BWG
| DNA TRIPLEX WITH 5' AND 3' JUNCTIONS, NMR, 10 STRUCTURES | Descriptor: | DNA (5'-D(*CP*TP*CP*TP*CP*T)-3'), DNA (5'-D(*GP*AP*CP*TP*GP*AP*GP*AP*GP*AP*CP*GP*TP*A)-3'), DNA (5'-D(*TP*AP*CP*GP*TP*CP*TP*CP*TP*CP*AP*GP*TP*C)-3') | Authors: | Asensio, J.L, Brown, T, Lane, A.N. | Deposit date: | 1998-09-22 | Release date: | 1999-03-23 | Last modified: | 2024-05-22 | Method: | SOLUTION NMR | Cite: | Solution conformation of a parallel DNA triple helix with 5' and 3' triplex-duplex junctions. Structure Fold.Des., 7, 1999
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376D
| A ZIPPER-LIKE DNA DUPLEX D(GCGAAAGCT) | Descriptor: | COBALT HEXAMMINE(III), DNA (5'-D(*GP*(CBR)P*GP*AP*AP*AP*GP*CP*T)-3') | Authors: | Cruse, W.B.T, Shepard, W, Prange, T, delalFortelle, E, Fourme, R. | Deposit date: | 1998-01-22 | Release date: | 1999-10-26 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | A zipper-like duplex in DNA: the crystal structure of d(GCGAAAGCT) at 2.1 A resolution. Structure, 6, 1998
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1JY1
| CRYSTAL STRUCTURE OF HUMAN TYROSYL-DNA PHOSPHODIESTERASE (TDP1) | Descriptor: | TYROSYL-DNA PHOSPHODIESTERASE | Authors: | Davies, D.R, Interthal, H, Champoux, J.J, Hol, W.G.J. | Deposit date: | 2001-09-10 | Release date: | 2002-02-20 | Last modified: | 2021-10-27 | Method: | X-RAY DIFFRACTION (1.69 Å) | Cite: | The crystal structure of human tyrosyl-DNA phosphodiesterase, Tdp1. Structure, 10, 2002
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