PDB: 47011 件ウェブページステータス検索Chemie searchBIRD

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1JRE	DNA PROTECTION AND BINDING BY E. COLI DPS PROTEIN 分子名称: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, CADMIUM ION, DNA PROTECTION DURING STARVATION PROTEIN 著者 Luo, J, Liu, D, White, M.A, Fox, R.O. 登録日 2001-08-13 公開日 2003-06-17 最終更新日 2023-08-16 実験手法 X-RAY DIFFRACTION (2.65 Å) 主引用文献 DNA Protection and Binding by E. Coli Dps Protein To be Published
1JTS	DNA PROTECTION AND BINDING BY E. COLI DPS PROTEIN 分子名称: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DNA PROTECTION DURING STARVATION PROTEIN 著者 Luo, J, Liu, D, White, M.A, Fox, R.O. 登録日 2001-08-22 公開日 2003-06-17 最終更新日 2023-08-16 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 DNA Protection and Binding by E. Coli Dps Protein To be Published
7YUK	Complex structure of BANP BEN domain bound to DNA 分子名称: DNA (5'-D(*CP*TP*CP*TP*CP*GP*CP*GP*AP*GP*AP*G)-3'), GLYCEROL, Protein BANP 著者 Zhang, J, Xiao, Y.Q, Chen, Y.X, Liu, K, Min, J.R. 登録日 2022-08-17 公開日 2023-04-26 最終更新日 2023-11-29 実験手法 X-RAY DIFFRACTION (2.11 Å) 主引用文献 Structural insights into DNA recognition by the BEN domain of the transcription factor BANP. J.Biol.Chem., 299, 2023
6BKF	Lysyl-adenylate form of human LigIV catalytic domain with bound DNA substrate in open conformation 分子名称: ADENOSINE MONOPHOSPHATE, DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*C)-3'), DNA (5'-D(*GP*TP*CP*CP*GP*AP*CP*GP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Moon, A.F, Tumbale, P.P, Schellenberg, M.J, Williams, R.S, Williams, J.G, Kunkel, T.A, Pedersen, L.C, Bebenek, B. 登録日 2017-11-08 公開日 2018-07-18 最終更新日 2024-11-06 実験手法 X-RAY DIFFRACTION (3.25 Å) 主引用文献 Structures of DNA-bound human ligase IV catalytic core reveal insights into substrate binding and catalysis. Nat Commun, 9, 2018
6UBF	Role of Beta-hairpin motifs in the DNA duplex opening by the Rad4/XPC nucleotide excision repair complex 分子名称: DNA (5'-D(*AP*TP*TP*GP*TP*AP*GP*CP*GP*GP*GP*AP*TP*GP*TP*CP*GP*AP*GP*TP*CP*A)-3'), DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*(G47)P*AP*CP*AP*TP*CP*CP*C*GP*CP*TP*AP*CP*AP*A)-3'), DNA repair protein RAD4, ... 著者 Paul, D, Min, J.H. 登録日 2019-09-11 公開日 2020-10-14 最終更新日 2024-11-06 実験手法 X-RAY DIFFRACTION (4.597 Å) 主引用文献 Kinetic gating mechanism of DNA damage recognition by Rad4/XPC. Nat Commun, 6, 2015
6GCF	DNA binding domain of restriction endonuclease McrBC in complex with N4-methylcytosine DNA 分子名称: 5-methylcytosine-specific restriction enzyme B, DNA (5'-D(*GP*AP*GP*AP*CP*CP*GP*GP*TP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*(C34)P*CP*GP*GP*TP*CP*TP*C)-3') 著者 Sasnauskas, G. 登録日 2018-04-17 公開日 2018-09-19 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (1.55 Å) 主引用文献 Recognition of modified cytosine variants by the DNA-binding domain of methyl-directed endonuclease McrBC. FEBS Lett., 592, 2018
8OMO	DNA-unbound MutSbeta-ATP complex (bent clamp form) 分子名称: ADENOSINE-5'-TRIPHOSPHATE, DNA mismatch repair protein Msh2, DNA mismatch repair protein Msh3, ... 著者 Lee, J.-H, Thomsen, M, Daub, H, Steinbacher, S, Sztyler, A, Thieulin-Pardo, G, Neudegger, T, Plotnikov, N, Iyer, R.R, Wilkinson, H, Monteagudo, E, Felsenfeld, D.P, Haque, T, Finley, M, Dominguez, C, Vogt, T.F, Prasad, B.C. 登録日 2023-03-31 公開日 2023-05-24 最終更新日 2024-07-24 実験手法 ELECTRON MICROSCOPY (3.43 Å) 主引用文献 DNA-unbound MutSbeta-ATP complex (bent clamp form) To Be Published
1ZS4	Structure of bacteriophage lambda cII protein in complex with DNA 分子名称: DNA - 27mer, Regulatory protein CII 著者 Jain, D, Kim, Y, Maxwell, K.L, Beasley, S, Gussin, G.N, Edwards, A.M, Darst, S.A. 登録日 2005-05-23 公開日 2005-08-23 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (1.7 Å) 主引用文献 Crystal Structure of Bacteriophage lambdacII and Its DNA Complex. Mol.Cell, 19, 2005
8OM5	DNA-free open form of MutSbeta 分子名称: ADENOSINE-5'-DIPHOSPHATE, DNA mismatch repair protein Msh2, DNA mismatch repair protein Msh3, ... 著者 Lee, J.-H, Thomsen, M, Daub, H, Steinbacher, S, Sztyler, A, Thieulin-Pardo, G, Neudegger, T, Plotnikov, N, Iyer, R.R, Wilkinson, H, Monteagudo, E, Felsenfeld, D.P, Haque, T, Finley, M, Dominguez, C, Vogt, T.F, Prasad, B.C. 登録日 2023-03-31 公開日 2023-05-24 最終更新日 2024-10-23 実験手法 ELECTRON MICROSCOPY (3.52 Å) 主引用文献 DNA-free open form of MutSbeta To Be Published
8OMQ	DNA-unbound MutSbeta-ATP complex (straight clamp form) 分子名称: ADENOSINE-5'-TRIPHOSPHATE, DNA mismatch repair protein Msh2, DNA mismatch repair protein Msh3, ... 著者 Lee, J.-H, Thomsen, M, Daub, H, Steinbacher, S, Sztyler, A, Thieulin-Pardo, G, Neudegger, T, Plotnikov, N, Iyer, R.R, Wilkinson, H, Monteagudo, E, Felsenfeld, D.P, Haque, T, Finley, M, Dominguez, C, Vogt, T.F, Prasad, B.C. 登録日 2023-03-31 公開日 2023-05-24 最終更新日 2024-07-24 実験手法 ELECTRON MICROSCOPY (3.11 Å) 主引用文献 DNA-unbound MutSbeta-ATP complex (straight clamp form) To Be Published
6GCE	DNA binding domain of restriction endonuclease McrBC in complex with 5-formylcytosine DNA 分子名称: 5-methylcytosine-specific restriction enzyme B, DNA (5'-D(*GP*AP*GP*AP*CP*CP*GP*GP*TP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*(5FC)P*CP*GP*GP*TP*CP*TP*C)-3') 著者 Sasnauskas, G. 登録日 2018-04-17 公開日 2018-09-19 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 Recognition of modified cytosine variants by the DNA-binding domain of methyl-directed endonuclease McrBC. FEBS Lett., 592, 2018
6CQK	Crystal Structure of mitochondrial single-stranded DNA binding proteins from S. cerevisiae, Rim1 (Form1) 分子名称: SsDNA-binding protein essential for mitochondrial genome maintenance 著者 Singh, S.P, Kukshal, V, Bona, P.D, Lytle, A.K, Edwin, A, Galletto, R. 登録日 2018-03-15 公開日 2018-05-30 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.8 Å) 主引用文献 The mitochondrial single-stranded DNA binding protein from S. cerevisiae, Rim1, does not form stable homo-tetramers and binds DNA as a dimer of dimers. Nucleic Acids Res., 46, 2018
6W4T	APE1 Y269A phosphorothioate substrate complex with abasic DNA 分子名称: DNA (5'-D(*GP*GP*AP*TP*CP*CP*GP*TP*CP*GP*GP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(P*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*(48Z)P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), DNA-(apurinic or apyrimidinic site) lyase 著者 Freudenthal, B.D, Hoitsma, N.M. 登録日 2020-03-11 公開日 2020-06-17 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.77 Å) 主引用文献 AP-endonuclease 1 sculpts DNA through an anchoring tyrosine residue on the DNA intercalating loop. Nucleic Acids Res., 48, 2020
6HB4	TFAM in Complex with Site-Y 分子名称: DNA (5'*CP*TP*GP*TP*GP*CP*AP*GP*AP*CP*AP*TP*TP*CP*AP*AP*TP*TP*GP*TP*TP*A)-3'), DNA (5'-D(*TP*AP*AP*CP*AP*AP*TP*TP*GP*AP*AP*TP*GP*TP*CP*TP*GP*CP*AP*CP*AP*G)-3'), GLYCEROL, ... 著者 Cuppari, A, Fernandez-Millan, P, Rubio-Cosials, A, Tarres-Sole, A, Lyonnais, S, Sola, M. 登録日 2018-08-09 公開日 2019-06-05 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (3.05 Å) 主引用文献 DNA specificities modulate the binding of human transcription factor A to mitochondrial DNA control region. Nucleic Acids Res., 47, 2019
8G4G	Crystal Engineering with One 8-mer DNA 分子名称: DNA (5'-D(*AP*TP*CP*GP*G)-3'), DNA (5'-D(*AP*TP*CP*GP*GP*CP*CP*G)-3'), DNA (5'-D(P*CP*CP*G)-3') 著者 Zhao, J, Zhang, C, Lu, B, Seeman, N.C, Noinaj, N, Sha, R, Mao, C. 登録日 2023-02-09 公開日 2023-05-10 最終更新日 2024-05-22 実験手法 X-RAY DIFFRACTION (2.17 Å) 主引用文献 Divergence and Convergence: Complexity Emerges in Crystal Engineering from an 8-mer DNA. J.Am.Chem.Soc., 145, 2023
8IAZ	Cryo-EM structure of the ISFba1 TnpB-reRNA-dsDNA complex 分子名称: DNA (5'-D(P*AP*CP*AP*TP*GP*GP*AP*CP*CP*AP*TP*CP*AP*GP*CP*TP*CP*CP*TP*AP*AP*TP*GP*G)-3'), DNA (5'-D(P*CP*CP*AP*TP*TP*AP*GP*GP*AP*GP*CP*TP*GP*AP*TP*G)-3'), RNA (207-MER), ... 著者 Yin, M, Zhou, F, Zhu, Y, Huang, Z. 登録日 2023-02-09 公開日 2024-04-17 最終更新日 2024-05-15 実験手法 ELECTRON MICROSCOPY (3 Å) 主引用文献 Discovery and structural mechanism of DNA endonucleases guided by RAGATH-18-derived RNAs. Cell Res., 34, 2024
6ON0	STRUCTURE OF N15 CRO COMPLEXED WITH CONSENSUS OPERATOR DNA 分子名称: DNA (5'-D(*TP*TP*TP*AP*TP*AP*GP*CP*TP*AP*GP*CP*TP*AP*TP*AP*A)-3'), Gp39 著者 Hall, B.M, Roberts, S.A, Cordes, M.H.J. 登録日 2019-04-19 公開日 2019-05-15 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 Extreme divergence between one-to-one orthologs: the structure of N15 Cro bound to operator DNA and its relationship to the lambda Cro complex. Nucleic Acids Res., 47, 2019
4U9M	Structure of the DNA duplex d(ATTAAT)2 with Hoogsteen hydrogen bonds 分子名称: DNA (5'-D(*AP*TP*TP*AP*AP*T)-3') 著者 Acosta-Reyes, F.J, Alechaga, E, Subirana, J.A, Campos, J.L. 登録日 2014-08-06 公開日 2015-04-01 最終更新日 2023-12-20 実験手法 X-RAY DIFFRACTION (3.13 Å) 主引用文献 Structure of the DNA Duplex d(ATTAAT)2 with Hoogsteen Hydrogen Bonds. Plos One, 10, 2015
6DT1	Crystal structure of the ligase from bacteriophage T4 complexed with DNA intermediate 分子名称: 2,3-DIHYDROXY-1,4-DITHIOBUTANE, ADENOSINE MONOPHOSPHATE, CHLORIDE ION, ... 著者 Shi, K, Aihara, H. 登録日 2018-06-14 公開日 2018-09-19 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.75 Å) 主引用文献 T4 DNA ligase structure reveals a prototypical ATP-dependent ligase with a unique mode of sliding clamp interaction. Nucleic Acids Res., 46, 2018
3E0J	X-ray structure of the complex of regulatory subunits of human DNA polymerase delta 分子名称: DNA polymerase subunit delta-2, DNA polymerase subunit delta-3 著者 Baranovskiy, A.G, Babayeva, N.D, Pavlov, Y.I, Vassylyev, D.G, Tahirov, T.H. 登録日 2008-07-31 公開日 2008-12-16 最終更新日 2020-10-21 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 X-ray structure of the complex of regulatory subunits of human DNA polymerase delta. Cell Cycle, 7, 2008
8J9X	Cryo-EM structure of the African swine fever virus topoisomerase 2 complexed with Cut02aDNA and m-AMSA (EDI-3) 分子名称: DNA (5'-D(*GP*AP*GP*GP*TP*AP*TP*GP*TP*AP*GP*GP*C)-3'), DNA (5'-D(*GP*GP*CP*CP*GP*CP*CP*TP*AP*CP*AP*TP*AP*CP*CP*TP*C)-3'), DNA topoisomerase 2, ... 著者 Chang, C.-W, Tsai, M.-D. 登録日 2023-05-05 公開日 2024-02-07 最終更新日 2024-04-17 実験手法 ELECTRON MICROSCOPY (3 Å) 主引用文献 A unified view on enzyme catalysis by cryo-EM study of a DNA topoisomerase. Commun Chem, 7, 2024
4B08	Yeast DNA polymerase alpha, Selenomethionine protein 分子名称: DNA POLYMERASE ALPHA CATALYTIC SUBUNIT A 著者 Perera, R.L, Torella, R, Klinge, S, Kilkenny, M.L, Maman, J.D, Pellegrini, L. 登録日 2012-06-29 公開日 2013-02-27 最終更新日 2024-10-09 実験手法 X-RAY DIFFRACTION (2.67 Å) 主引用文献 Mechanism for Priming DNA Synthesis by Yeast DNA Polymerase Alpha Elife, 2, 2013
6IOD	The structure of UdgX in complex with single-stranded DNA 分子名称: DNA, IRON/SULFUR CLUSTER, Phage SPO1 DNA polymerase-related protein 著者 Xie, W, Tu, J. 登録日 2018-10-29 公開日 2019-07-31 最終更新日 2023-11-22 実験手法 X-RAY DIFFRACTION (1.66 Å) 主引用文献 Suicide inactivation of the uracil DNA glycosylase UdgX by covalent complex formation. Nat.Chem.Biol., 15, 2019
5F0Q	Crystal structure of C-terminal domain of the human DNA primase large subunit with bound DNA template/RNA primer 分子名称: DNA (5'-D(*GP*CP*CP*GP*CP*CP*AP*AP*CP*AP*TP*A)-3'), DNA primase large subunit, IRON/SULFUR CLUSTER, ... 著者 Tahirov, T.H, Baranovskiy, A.G, Babayeva, N.D. 登録日 2015-11-28 公開日 2016-03-23 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.21 Å) 主引用文献 Mechanism of Concerted RNA-DNA Primer Synthesis by the Human Primosome. J.Biol.Chem., 291, 2016
6KIJ	Crystal structure of yedK with ssDNA containing an abasic site 分子名称: DNA (5'-D(*GP*AP*TP*TP*CP*GP*TP*CP*G)-3'), GLYCEROL, PENTANE-3,4-DIOL-5-PHOSPHATE, ... 著者 Wang, N, Bao, H, Huang, H. 登録日 2019-07-18 公開日 2019-08-07 最終更新日 2024-10-23 実験手法 X-RAY DIFFRACTION (1.58 Å) 主引用文献 Molecular basis of abasic site sensing in single-stranded DNA by the SRAP domain of E. coli yedK. Nucleic Acids Res., 47, 2019

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