2XM3
 
 | | Deinococcus radiodurans ISDra2 Transposase Left end DNA complex | | 分子名称: | 5'-D(*TP*TP*AP*GP*T)-3', ACETATE ION, DRA2 TRANSPOSASE BINDING ELEMENT, ... | | 著者 | Hickman, A.B, James, J.A, Barabas, O, Pasternak, C, Ton-Hoang, B, Chandler, M, Sommer, S, Dyda, F. | | 登録日 | 2010-07-22 | | 公開日 | 2010-10-13 | | 最終更新日 | 2024-05-08 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | DNA Recognition and the Precleavage State During Single-Stranded DNA Transposition in D. Radiodurans.
Embo J., 29, 2010
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5ULX
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8U6X
 | | ATP-dependent DNA ligase Lig E from Neisseria gonorrhoeae | | 分子名称: | ADENOSINE MONOPHOSPHATE, DNA (5'-D(*AP*TP*TP*GP*CP*GP*AP*CP*CP*CP*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3'), DNA (5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3'), ... | | 著者 | Williamson, A, Pan, J. | | 登録日 | 2023-09-14 | | 公開日 | 2024-01-31 | | 実験手法 | X-RAY DIFFRACTION (2.44 Å) | | 主引用文献 | A role for the ATP-dependent DNA ligase lig E of Neisseria gonorrhoeae in biofilm formation.
Bmc Microbiol., 24, 2024
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5ULW
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7EF9
 | | Crystal structure of mouse MUTYH in complex with DNA containing AP site analogue:8-oxoG (Form II) | | 分子名称: | Adenine DNA glycosylase, DNA (5'-D(*AP*TP*GP*AP*GP*AP*CP*(8OG)P*GP*GP*GP*AP*CP*T)-3'), DNA (5'-D(*TP*AP*GP*TP*CP*CP*CP*(3DR)P*GP*TP*CP*TP*C)-3'), ... | | 著者 | Nakamura, T, Nakabeppu, Y, Yamagata, Y. | | 登録日 | 2021-03-21 | | 公開日 | 2021-06-23 | | 最終更新日 | 2024-05-29 | | 実験手法 | X-RAY DIFFRACTION (1.97 Å) | | 主引用文献 | Structure of the mammalian adenine DNA glycosylase MUTYH: insights into the base excision repair pathway and cancer.
Nucleic Acids Res., 49, 2021
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7EF8
 | | Crystal structure of mouse MUTYH in complex with DNA containing AP site analogue:8-oxoG (Form I) | | 分子名称: | Adenine DNA glycosylase, DNA (5'-D(*TP*AP*GP*TP*CP*CP*CP*(3DR)P*GP*TP*CP*TP*C)-3'), DNA (5'-D(*TP*GP*AP*GP*AP*CP*(8OG)P*GP*GP*GP*AP*CP*T)-3'), ... | | 著者 | Nakamura, T, Nakabeppu, Y, Yamagata, Y. | | 登録日 | 2021-03-21 | | 公開日 | 2021-06-23 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.45 Å) | | 主引用文献 | Structure of the mammalian adenine DNA glycosylase MUTYH: insights into the base excision repair pathway and cancer.
Nucleic Acids Res., 49, 2021
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8U3Y
 | | SpG Cas9 with NGG PAM DNA target | | 分子名称: | CRISPR-associated endonuclease Cas9/Csn1, DNA (5'-D(P*CP*GP*TP*TP*TP*GP*TP*AP*CP*TP*CP*CP*AP*GP*CP*G)-3'), DNA (5'-D(P*TP*CP*TP*CP*AP*TP*CP*TP*TP*TP*AP*TP*GP*CP*GP*TP*C)-3'), ... | | 著者 | Bravo, J.P.K, Hibshman, G.N, Taylor, D.W. | | 登録日 | 2023-09-08 | | 公開日 | 2024-05-01 | | 最終更新日 | 2024-05-15 | | 実験手法 | ELECTRON MICROSCOPY (3.1 Å) | | 主引用文献 | Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9.
Nat Commun, 15, 2024
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8TZZ
 | | SpG Cas9 with NGC PAM DNA target | | 分子名称: | CRISPR-associated endonuclease Cas9/Csn1, DNA (5'-D(P*CP*GP*TP*TP*TP*GP*TP*AP*CP*TP*GP*CP*AP*GP*CP*G)-3'), DNA (5'-D(P*TP*CP*TP*CP*AP*TP*CP*TP*TP*TP*AP*TP*GP*CP*GP*TP*C)-3'), ... | | 著者 | Bravo, J.P.K, Hibshman, G.N, Taylor, D.W. | | 登録日 | 2023-08-28 | | 公開日 | 2024-05-01 | | 最終更新日 | 2024-05-15 | | 実験手法 | ELECTRON MICROSCOPY (3.56 Å) | | 主引用文献 | Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9.
Nat Commun, 15, 2024
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6AJR
 | | Complex form of Uracil DNA glycosylase X and uracil | | 分子名称: | IRON/SULFUR CLUSTER, URACIL, Uracil DNA glycosylase superfamily protein | | 著者 | Ahn, W.C, Aroli, S, Varshney, U, Woo, E.J. | | 登録日 | 2018-08-28 | | 公開日 | 2019-05-29 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (1.341 Å) | | 主引用文献 | Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.
Nat.Chem.Biol., 15, 2019
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6AJP
 | | Complex form of Uracil DNA glycosylase X and deoxyuridine monophosphate. | | 分子名称: | 2'-DEOXYURIDINE-5'-MONOPHOSPHATE, IRON/SULFUR CLUSTER, Uracil DNA glycosylase superfamily protein | | 著者 | Ahn, W.C, Aroli, S, Varshney, U, Woo, E.J. | | 登録日 | 2018-08-28 | | 公開日 | 2019-05-29 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (1.334 Å) | | 主引用文献 | Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.
Nat.Chem.Biol., 15, 2019
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6AJQ
 | | E52Q mutant form of Uracil DNA glycosylase X from Mycobacterium smegmatis. | | 分子名称: | IRON/SULFUR CLUSTER, Uracil DNA glycosylase superfamily protein | | 著者 | Ahn, W.C, Aroli, S, Varshney, U, Woo, E.J. | | 登録日 | 2018-08-28 | | 公開日 | 2019-05-29 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (1.342 Å) | | 主引用文献 | Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.
Nat.Chem.Biol., 15, 2019
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2HAJ
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6AJS
 | | H109S mutant form of Uracil DNA glycosylase X. | | 分子名称: | IRON/SULFUR CLUSTER, Uracil DNA glycosylase superfamily protein | | 著者 | Ahn, W.C, Aroli, S, Varshney, U, Woo, E.J. | | 登録日 | 2018-08-28 | | 公開日 | 2019-05-29 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (1.632 Å) | | 主引用文献 | Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.
Nat.Chem.Biol., 15, 2019
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3NGD
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3K0S
 | | Crystal structure of E.coli DNA mismatch repair protein MutS, D693N mutant, in complex with GT mismatched DNA | | 分子名称: | 5'-D(*AP*GP*CP*TP*GP*CP*CP*AP*GP*GP*CP*AP*CP*CP*AP*GP*TP*GP*TP*CP*AP*GP*CP*GP*TP*CP*CP*TP*AP*T)-3', 5'-D(*AP*TP*AP*GP*GP*AP*CP*GP*CP*TP*GP*AP*C*AP*CP*T*GP*GP*TP*GP*CP*TP*TP*GP*GP*CP*AP*GP*CP*T)-3', ADENOSINE-5'-DIPHOSPHATE, ... | | 著者 | Reumer, G.A, Winterwerp, H.H.K, Sixma, T.K. | | 登録日 | 2009-09-25 | | 公開日 | 2010-02-16 | | 最終更新日 | 2023-09-06 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | Magnesium coordination controls the molecular switch function of DNA mismatch repair protein MutS.
J.Biol.Chem., 285, 2010
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2OYQ
 | | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | | 分子名称: | 1-{2-DEOXY-5-O-[(R)-HYDROXY{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}PHOSPHORYL]-BETA-D-ERYTHRO-PENTOFURANOSYL}-5-NITRO -1H-INDOLE, DNA polymerase, MAGNESIUM ION, ... | | 著者 | Zahn, K.E, Belrhali, H, Wallace, S.S, Doublie, S. | | 登録日 | 2007-02-22 | | 公開日 | 2007-10-23 | | 最終更新日 | 2023-08-30 | | 実験手法 | X-RAY DIFFRACTION (2.86 Å) | | 主引用文献 | Caught bending the a-rule: crystal structures of translesion DNA synthesis with a non-natural nucleotide.
Biochemistry, 46, 2007
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4PU3
 | | Shewanella oneidensis MR-1 Toxin Antitoxin System HipA, HipB and its operator DNA complex (space group P212121) | | 分子名称: | Operator DNA, Toxin-antitoxin system antidote transcriptional repressor Xre family, Toxin-antitoxin system toxin HipA family | | 著者 | Wen, Y, Behiels, E, Felix, J, Elegheert, J, Vergauwen, B, Devreese, B, Savvides, S. | | 登録日 | 2014-03-12 | | 公開日 | 2014-08-06 | | 最終更新日 | 2023-09-20 | | 実験手法 | X-RAY DIFFRACTION (3.39 Å) | | 主引用文献 | The bacterial antitoxin HipB establishes a ternary complex with operator DNA and phosphorylated toxin HipA to regulate bacterial persistence.
Nucleic Acids Res., 42, 2014
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4DKJ
 | | CpG specific methyltransferase in complex with target DNA | | 分子名称: | Cytosine-specific methyltransferase, DNA (5'-D(*CP*CP*AP*CP*AP*TP*GP*(C37)P*GP*CP*TP*GP*AP*A)-3'), DNA (5'-D(*GP*TP*TP*CP*AP*GP*(5CM)P*GP*CP*AP*TP*GP*TP*G)-3'), ... | | 著者 | Wojciechowski, M, Czapinska, H, Bochtler, M. | | 登録日 | 2012-02-03 | | 公開日 | 2012-12-05 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (2.15 Å) | | 主引用文献 | CpG underrepresentation and the bacterial CpG-specific DNA methyltransferase M.MpeI.
Proc.Natl.Acad.Sci.USA, 110, 2013
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8A71
 | | Crystal structure of right-handed Z-DNA containing 2'-deoxy-L-ribose in complex with the polyamine cadaverine and potassium cations at ultrahigh resolution | | 分子名称: | 5-azaniumylpentylazanium, POTASSIUM ION, Right-handed Z-DNA | | 著者 | Drozdzal, P, Manszewski, T, Gilski, M, Brzezinski, K, Jaskolski, M. | | 登録日 | 2022-06-20 | | 公開日 | 2023-02-22 | | 最終更新日 | 2024-02-07 | | 実験手法 | X-RAY DIFFRACTION (0.69 Å) | | 主引用文献 | Right-handed Z-DNA at ultrahigh resolution: a tale of two hands and the power of the crystallographic method.
Acta Crystallogr D Struct Biol, 79, 2023
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5D9I
 | | SV40 Large T antigen origin binding domain bound to artificial DNA fork | | 分子名称: | 1,2-ETHANEDIOL, ACETATE ION, CALCIUM ION, ... | | 著者 | Meinke, G, Bohm, A, Bullock, P.A. | | 登録日 | 2015-08-18 | | 公開日 | 2015-09-09 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (1.7 Å) | | 主引用文献 | Structure-based analysis of the interaction between the simian virus 40 T-antigen origin binding domain and single-stranded DNA.
J. Virol., 85, 2011
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8B6E
 | | crystal structure of the DNA-binding short chromatophore-targeted protein sCTP-23166 from Paulinella chromatophora | | 分子名称: | 1,2-ETHANEDIOL, SODIUM ION, sCTP-23166 | | 著者 | Macorano, L, Applegate, V, Hoeppner, A, Smits, S.H.J, Nowack, E.C.M. | | 登録日 | 2022-09-27 | | 公開日 | 2023-07-12 | | 最終更新日 | 2024-05-01 | | 実験手法 | X-RAY DIFFRACTION (1.2 Å) | | 主引用文献 | DNA-binding and protein structure of nuclear factors likely acting in genetic information processing in the Paulinella chromatophore.
Proc.Natl.Acad.Sci.USA, 120, 2023
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3U7G
 | | Crystal structure of mPNKP catalytic fragment (D170A) bound to single-stranded DNA (TCCTAp) | | 分子名称: | Bifunctional polynucleotide phosphatase/kinase, DNA, GLYCEROL, ... | | 著者 | Coquelle, N, Havali, Z, Bernstein, N, Green, R, Glover, J.N.M. | | 登録日 | 2011-10-13 | | 公開日 | 2011-12-14 | | 最終更新日 | 2017-11-08 | | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | | 主引用文献 | Structural basis for the phosphatase activity of polynucleotide kinase/phosphatase on single- and double-stranded DNA substrates.
Proc.Natl.Acad.Sci.USA, 108, 2011
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6U8X
 | | Crystal structure of DNMT3B-DNMT3L in complex with CpApG DNA | | 分子名称: | CpApG DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | 著者 | Gao, L, Song, J. | | 登録日 | 2019-09-06 | | 公開日 | 2020-06-10 | | 最終更新日 | 2023-10-11 | | 実験手法 | X-RAY DIFFRACTION (2.95063877 Å) | | 主引用文献 | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms.
Nat Commun, 11, 2020
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6GN3
 | | Racemic crystal structure of A-DNA duplex formed from d(CCCGGG) in space group P21/n | | 分子名称: | CHLORIDE ION, COBALT (II) ION, DNA (5'-D(*CP*CP*CP*GP*GP*G)-3'), ... | | 著者 | Mandal, P.K, Collie, G.W, Kauffmann, B, Huc, I. | | 登録日 | 2018-05-29 | | 公開日 | 2019-09-11 | | 最終更新日 | 2024-06-12 | | 実験手法 | X-RAY DIFFRACTION (2.8 Å) | | 主引用文献 | Racemic crystal structures of A-DNA duplexes.
Acta Crystallogr D Struct Biol, 78, 2022
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3U7H
 | | Crystal structure of mPNKP catalytic fragment (D170A) bound to single-stranded DNA (TCCTTp) | | 分子名称: | Bifunctional polynucleotide phosphatase/kinase, DNA, GLYCEROL, ... | | 著者 | Coquelle, N, Havali, Z, Bernstein, N, Green, R, Glover, J.N.M. | | 登録日 | 2011-10-13 | | 公開日 | 2011-12-14 | | 最終更新日 | 2017-11-08 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Structural basis for the phosphatase activity of polynucleotide kinase/phosphatase on single- and double-stranded DNA substrates.
Proc.Natl.Acad.Sci.USA, 108, 2011
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