8AIM
 
 | | Ugi-2 SAUNG complex | | 分子名称: | Uracil-DNA glycosylase, Uracil-DNA glycosylase inhibitor | | 著者 | Muselmani, W, Savva, R. | | 登録日 | 2022-07-26 | | 公開日 | 2023-06-21 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | A Multimodal Approach towards Genomic Identification of Protein Inhibitors of Uracil-DNA Glycosylase.
Viruses, 15, 2023
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3BTZ
 | | Crystal structure of human ABH2 cross-linked to dsDNA | | 分子名称: | Alpha-ketoglutarate-dependent dioxygenase alkB homolog 2, DNA (5'-D(*AP*GP*GP*TP*GP*AP*(2YR)P*AP*AP*TP*GP*CP*G)-3'), DNA (5'-D(*DTP*DCP*DGP*DCP*DAP*DTP*DTP*DAP*DTP*DCP*DAP*DCP*DC)-3') | | 著者 | Yang, C.-G, Yi, C, He, C. | | 登録日 | 2007-12-31 | | 公開日 | 2008-04-22 | | 最終更新日 | 2021-10-20 | | 実験手法 | X-RAY DIFFRACTION (3 Å) | | 主引用文献 | Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA.
Nature, 452, 2008
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3BUC
 | | X-ray structure of human ABH2 bound to dsDNA with Mn(II) and 2KG | | 分子名称: | 2-OXOGLUTARIC ACID, Alpha-ketoglutarate-dependent dioxygenase alkB homolog 2, DNA (5'-D(*DCP*DTP*DGP*DTP*DAP*DTP*(MA7)P*DAP*DCP*DTP*DGP*DCP*DG)-3'), ... | | 著者 | Yang, C.-G, Yi, C, He, C. | | 登録日 | 2008-01-02 | | 公開日 | 2008-04-22 | | 最終更新日 | 2021-10-20 | | 実験手法 | X-RAY DIFFRACTION (2.59 Å) | | 主引用文献 | Crystal structures of DNA/RNA repair enzymes AlkB and ABH2 bound to dsDNA.
Nature, 452, 2008
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1TGO
 | | THERMOSTABLE B TYPE DNA POLYMERASE FROM THERMOCOCCUS GORGONARIUS | | 分子名称: | PROTEIN (THERMOSTABLE B DNA POLYMERASE) | | 著者 | Hopfner, K.-P, Eichinger, A, Engh, R.A, Laue, F, Ankenbauer, W, Huber, R, Angerer, B. | | 登録日 | 1999-02-23 | | 公開日 | 1999-03-22 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Crystal structure of a thermostable type B DNA polymerase from Thermococcus gorgonarius.
Proc.Natl.Acad.Sci.USA, 96, 1999
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6O0Y
 | | Conformational states of Cas9-sgRNA-DNA ternary complex in the presence of magnesium | | 分子名称: | 3' product of target strand DNA, 5' product of target strand DNA, CRISPR-associated endonuclease Cas9/Csn1, ... | | 著者 | Zhu, X, Clarke, R, Puppala, A.K, Chittori, S, Merk, A, Merrill, B.J, Simonovic, M, Subramaniam, S. | | 登録日 | 2019-02-17 | | 公開日 | 2019-07-10 | | 最終更新日 | 2024-03-20 | | 実験手法 | ELECTRON MICROSCOPY (3.37 Å) | | 主引用文献 | Cryo-EM structures reveal coordinated domain motions that govern DNA cleavage by Cas9.
Nat.Struct.Mol.Biol., 26, 2019
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2PYL
 | | Phi29 DNA polymerase complexed with primer-template DNA and incoming nucleotide substrates (ternary complex) | | 分子名称: | 1,2-ETHANEDIOL, 5'-d(CTGACGAATGTACA)-3', 5'-d(GACTGCTTAC(2DA))-3', ... | | 著者 | Berman, A.J, Kamtekar, S, Goodman, J.L, Lazaro, J.M, de Vega, M, Blanco, L, Salas, M, Steitz, T.A. | | 登録日 | 2007-05-16 | | 公開日 | 2007-07-17 | | 最終更新日 | 2023-08-30 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Structures of phi29 DNA polymerase complexed with substrate: the mechanism of translocation in B-family polymerases
Embo J., 26, 2007
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7LH9
 | | Crystal structure of BRPF2 PWWP domain in complex with DNA | | 分子名称: | Bromodomain-containing protein 1, DNA | | 著者 | Zhang, M, Lei, M, Qin, S, Dong, A, Yang, A, Li, Y, Loppnau, P, Hughes, T.R, Arrowsmith, C.H, Edwards, A.M, Min, J, Liu, J, Structural Genomics Consortium (SGC) | | 登録日 | 2021-01-21 | | 公開日 | 2021-02-17 | | 最終更新日 | 2023-10-18 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | Crystal structure of the BRPF2 PWWP domain in complex with DNA reveals a different binding mode than the HDGF family of PWWP domains.
Biochim Biophys Acta Gene Regul Mech, 1864, 2021
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2PYJ
 | | Phi29 DNA polymerase complexed with primer-template DNA and incoming nucleotide substrates (ternary complex) | | 分子名称: | 1,2-ETHANEDIOL, 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-d(ACACGTAAGCAGTC)-3', ... | | 著者 | Berman, A.J, Kamtekar, S, Goodman, J.L, Lazaro, J.M, de Vega, M, Blanco, L, Salas, M, Steitz, T.A. | | 登録日 | 2007-05-16 | | 公開日 | 2007-07-17 | | 最終更新日 | 2023-08-30 | | 実験手法 | X-RAY DIFFRACTION (2.03 Å) | | 主引用文献 | Structures of phi29 DNA polymerase complexed with substrate: the mechanism of translocation in B-family polymerases
Embo J., 26, 2007
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5TD5
 | | Crystal Structure of Human APOBEC3B variant complexed with ssDNA | | 分子名称: | 1,2-ETHANEDIOL, CHLORIDE ION, DNA (5'-D(P*TP*TP*CP*AP*T)-3'), ... | | 著者 | Shi, K, Banerjee, S, Kurahashi, K, Aihara, H. | | 登録日 | 2016-09-16 | | 公開日 | 2016-12-28 | | 最終更新日 | 2024-03-06 | | 実験手法 | X-RAY DIFFRACTION (1.718 Å) | | 主引用文献 | Structural basis for targeted DNA cytosine deamination and mutagenesis by APOBEC3A and APOBEC3B.
Nat. Struct. Mol. Biol., 24, 2017
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1S0M
 | | Crystal structure of a Benzo[a]pyrene Diol Epoxide adduct in a ternary complex with a DNA polymerase | | 分子名称: | 1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE, 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*T)-3', ... | | 著者 | Ling, H, Sayer, J.M, Boudsocq, F, Plosky, B.S, Woodgate, R, Yang, W. | | 登録日 | 2003-12-31 | | 公開日 | 2004-03-30 | | 最終更新日 | 2023-08-23 | | 実験手法 | X-RAY DIFFRACTION (2.7 Å) | | 主引用文献 | Crystal structure of a benzo[a]pyrene diol epoxide adduct in a ternary complex with a DNA polymerase.
Proc.Natl.Acad.Sci.USA, 101, 2004
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3AFP
 | | Crystal structure of the single-stranded DNA binding protein from Mycobacterium leprae (Form I) | | 分子名称: | CADMIUM ION, GLYCEROL, Single-stranded DNA-binding protein | | 著者 | Kaushal, P.S, Singh, P, Sharma, A, Muniyappa, K, Vijayan, M. | | 登録日 | 2010-03-10 | | 公開日 | 2010-10-06 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.05 Å) | | 主引用文献 | X-ray and molecular-dynamics studies on Mycobacterium leprae single-stranded DNA-binding protein and comparison with other eubacterial SSB structures
Acta Crystallogr.,Sect.D, 66, 2010
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4PUQ
 | | Mus Musculus Tdp2 reaction product complex with 5'-phosphorylated RNA/DNA, glycerol, and Mg2+ | | 分子名称: | ACETATE ION, DNA/RNA hybrid, GLYCEROL, ... | | 著者 | Schellenberg, M.J, Williams, R.S. | | 登録日 | 2014-03-13 | | 公開日 | 2014-05-14 | | 最終更新日 | 2023-09-20 | | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | | 主引用文献 | Proteolytic Degradation of Topoisomerase II (Top2) Enables the Processing of Top2DNA and Top2RNA Covalent Complexes by Tyrosyl-DNA-Phosphodiesterase 2 (TDP2).
J.Biol.Chem., 289, 2014
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3AFQ
 | | Crystal structure of the single-stranded DNA binding protein from Mycobacterium leprae (Form II) | | 分子名称: | Single-stranded DNA-binding protein | | 著者 | Kaushal, P.S, Singh, P, Sharma, A, Muniyappa, K, Vijayan, M. | | 登録日 | 2010-03-10 | | 公開日 | 2010-10-06 | | 最終更新日 | 2023-11-01 | | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | | 主引用文献 | X-ray and molecular-dynamics studies on Mycobacterium leprae single-stranded DNA-binding protein and comparison with other eubacterial SSB structures
Acta Crystallogr.,Sect.D, 66, 2010
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3RWU
 | | RB69 DNA Polymerase (Y567A) Ternary Complex with dATP Opposite Difluorotoluene Nucleoside | | 分子名称: | 5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*(DOC))-3', 5'-D(*TP*CP*GP*(DFT)P*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3', ADENOSINE-5'-TRIPHOSPHATE, ... | | 著者 | Xia, S, Konigsberg, W.H, Wang, J. | | 登録日 | 2011-05-09 | | 公開日 | 2011-06-29 | | 最終更新日 | 2024-02-28 | | 実験手法 | X-RAY DIFFRACTION (2.33 Å) | | 主引用文献 | Hydrogen-Bonding Capability of a Templating Difluorotoluene Nucleotide Residue in an RB69 DNA Polymerase Ternary Complex.
J.Am.Chem.Soc., 133, 2011
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1EYG
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5G5T
 | | Structure of the Argonaute protein from Methanocaldcoccus janaschii in complex with guide DNA | | 分子名称: | ARGONAUTE, GUIDE DNA, MAGNESIUM ION, ... | | 著者 | Schneider, S, Oellig, C.A, Keegan, R, Grohmann, D, Zander, A, Willkomm, S. | | 登録日 | 2016-06-03 | | 公開日 | 2017-02-08 | | 最終更新日 | 2024-01-10 | | 実験手法 | X-RAY DIFFRACTION (2.85 Å) | | 主引用文献 | Structural and mechanistic insights into an archaeal DNA-guided Argonaute protein.
Nat Microbiol, 2, 2017
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7W27
 | | Crystal structure of BEND3-BEN4-DNA complex | | 分子名称: | BEN domain-containing protein 3, DNA (5'-D(P*GP*GP*AP*CP*CP*CP*AP*CP*GP*CP*AP*GP*C)-3'), DNA (5'-D(P*GP*GP*CP*TP*GP*CP*GP*TP*GP*GP*GP*TP*C)-3') | | 著者 | Zheng, L, Ren, A. | | 登録日 | 2021-11-22 | | 公開日 | 2022-02-23 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.49 Å) | | 主引用文献 | Distinct structural bases for sequence-specific DNA binding by mammalian BEN domain proteins.
Genes Dev., 36, 2022
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6ZZ6
 | | Cryo-EM structure of S.cerevisiae cohesin-Scc2-DNA complex | | 分子名称: | ADENOSINE-5'-TRIPHOSPHATE, DNA (34-MER), MAGNESIUM ION, ... | | 著者 | Lee, B.-G, Gonzalez Llamazares, A, Collier, J, Nasmyth, K.A, Lowe, J. | | 登録日 | 2020-08-04 | | 公開日 | 2020-09-30 | | 最終更新日 | 2024-05-01 | | 実験手法 | ELECTRON MICROSCOPY (3.4 Å) | | 主引用文献 | Transport of DNA within cohesin involves clamping on top of engaged heads by Scc2 and entrapment within the ring by Scc3.
Elife, 9, 2020
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5F56
 | | Structure of RecJ complexed with DNA and SSB-ct | | 分子名称: | ALA-ASP-LEU-PRO-PHE, DNA (5'-D(*CP*TP*GP*AP*TP*GP*GP*CP*A)-3'), MANGANESE (II) ION, ... | | 著者 | Zhao, Y, Hua, Y, Cheng, K. | | 登録日 | 2015-12-04 | | 公開日 | 2016-06-15 | | 最終更新日 | 2023-11-08 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Structural basis for DNA 5 -end resection by RecJ
Elife, 5, 2016
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8YFJ
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8YEY
 | | TRIP4 ASCH domain in complex with ssDNA-1 | | 分子名称: | Activating signal cointegrator 1, DNA (5'-D(*GP*TP*TP*TP*C)-3') | | 著者 | Ding, J, Yang, H, Hu, C. | | 登録日 | 2024-02-23 | | 公開日 | 2024-06-26 | | 最終更新日 | 2024-08-28 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Biochemical and structural characterization of the DNA-binding properties of human TRIP4 ASCH domain reveals insights into its functional role.
Structure, 32, 2024
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8YFI
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8I69
 | | Crystal structure of Mycobacterium tuberculosis Uracil-DNA glycosylase in complex with 5-Fluoroorotic acid and Citric acid, Form I | | 分子名称: | 1,2-ETHANEDIOL, 5-FLUORO-2,6-DIOXO-1,2,3,6-TETRAHYDROPYRIMIDINE-4-CARBOXYLIC ACID, CITRIC ACID, ... | | 著者 | Raj, P, Paul, A, Gopal, B. | | 登録日 | 2023-01-27 | | 公開日 | 2023-07-12 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Crystal structures of non-uracil ring fragments in complex with Mycobacterium tuberculosis uracil DNA glycosylase (MtUng) as a starting point for novel inhibitor design: A case study with the barbituric acid fragment.
Eur.J.Med.Chem., 258, 2023
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8I6B
 | | Crystal structure of Mycobacterium tuberculosis Uracil-DNA glycosylase in complex with 5-Hydroxy-2,4(1H,3H)-pyrimidinedione, Form I | | 分子名称: | 1,2-ETHANEDIOL, 5-oxidanyl-1~{H}-pyrimidine-2,4-dione, CHLORIDE ION, ... | | 著者 | Raj, P, Paul, A, Gopal, B. | | 登録日 | 2023-01-27 | | 公開日 | 2023-07-12 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | | 主引用文献 | Crystal structures of non-uracil ring fragments in complex with Mycobacterium tuberculosis uracil DNA glycosylase (MtUng) as a starting point for novel inhibitor design: A case study with the barbituric acid fragment.
Eur.J.Med.Chem., 258, 2023
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8I63
 | | Crystal structure of Mycobacterium tuberculosis Uracil-DNA glycosylase in complex with Barbituric acid, Form III | | 分子名称: | 1,2-ETHANEDIOL, BARBITURIC ACID, Uracil-DNA glycosylase | | 著者 | Raj, P, Paul, A, Gopal, B. | | 登録日 | 2023-01-27 | | 公開日 | 2023-07-12 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (1.95 Å) | | 主引用文献 | Crystal structures of non-uracil ring fragments in complex with Mycobacterium tuberculosis uracil DNA glycosylase (MtUng) as a starting point for novel inhibitor design: A case study with the barbituric acid fragment.
Eur.J.Med.Chem., 258, 2023
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