PDB: 45953 resultsInfo pagesStatus searchChemie searchBIRD

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3G3Y	Mth0212 in complex with ssDNA in space group P32 Descriptor: 5'-D(*CP*GP*TP*AP*(UPS)P*TP*AP*CP*G)-3', Exodeoxyribonuclease, GLYCEROL, ... Authors: Lakomek, K, Dickmanns, A, Ficner, R. Deposit date: 2009-02-03 Release date: 2010-03-09 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Crystal Structure Analysis of DNA Uridine Endonuclease Mth212 Bound to DNA J.Mol.Biol., 399, 2010
3GA6	Mth0212 in complex with two DNA helices Descriptor: 5'-D(*GP*CP*CP*CP*TP*GP*UP*GP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*CP*GP*CP*AP*GP*GP*GP*C)-3', Exodeoxyribonuclease, ... Authors: Lakomek, K, Dickmanns, A, Ficner, R. Deposit date: 2009-02-16 Release date: 2010-03-09 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (1.898 Å) Cite: Crystal Structure Analysis of DNA Uridine Endonuclease Mth212 Bound to DNA J.Mol.Biol., 399, 2010
1ORP	Structure of a Trapped Endonuclease III-DNA Covalent Intermediate: Estranged-Adenine Complex Descriptor: 5'-D(*AP*AP*GP*AP*CP*AP*TP*GP*GP*AP*C)-3', 5'-D(*GP*TP*CP*CP*AP*(PED)P*GP*TP*CP*T)-3', Endonuclease III, ... Authors: Fromme, J.C, Verdine, G.L. Deposit date: 2003-03-14 Release date: 2003-07-15 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Structure of a Trapped Endonuclease III-DNA Covalent Intermediate Embo J., 22, 2003
1P59	Structure of a non-covalent Endonuclease III-DNA Complex Descriptor: 5'-D(*AP*AP*GP*AP*CP*GP*(5IU)P*GP*GP*AP*C)-3', 5'-D(TP*GP*(5IU)P*CP*CP*AP*(3DR)P*GP*(5IU)P*CP*T)-3', Endonuclease III, ... Authors: Fromme, J.C, Verdine, G.L. Deposit date: 2003-04-25 Release date: 2003-07-15 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Structure of a Trapped Endonuclease III-DNA Covalent Intermediate Embo J., 22, 2003
7DVD	The crystal structure of p53 DNA binding domain and PUMA complex Descriptor: Bcl-2-binding component 3, isoforms 1/2, Cellular tumor antigen p53, ... Authors: Han, C.W, Lee, H.N, Jeong, M.S, Jang, S.B. Deposit date: 2021-01-13 Release date: 2021-08-04 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.59 Å) Cite: Structural basis of the p53 DNA binding domain and PUMA complex. Biochem.Biophys.Res.Commun., 548, 2021
6UVW	Engineered variant of I-OnuI meganuclease with improved thermostability Descriptor: CALCIUM ION, DNA (27-MER), I-OnuI-e-Therm Authors: Werther, R, Stoddard, B.L. Deposit date: 2019-11-04 Release date: 2019-12-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.551 Å) Cite: Optimization of Protein Thermostability and Exploitation of Recognition Behavior to Engineer Altered Protein-DNA Recognition. Structure, 28, 2020
1PHJ	CRYSTAL STRUCTURE OF THE OXYTRICHA NOVA TELOMERE END-BINDING PROTEIN COMPLEXED WITH NONCOGNATE SSDNA GG(3DR)GTTTTGGGG Descriptor: 5'-D(*GP*GP*(3DR)P*GP*TP*TP*TP*TP*GP*GP*GP*G)-3', 5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*T)-3', Telomere-binding protein alpha subunit, ... Authors: Theobald, D.L, Schultz, S.C. Deposit date: 2003-05-29 Release date: 2003-06-17 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Nucleotide Shuffling and ssDNA Recognition in Oxytricha Nova Telomere End-Binding Protein Complexes Embo J., 22, 2003
6UWK	Engineered variant of I-OnuI meganuclease with improved stability and fully altered specificity targeting human chromosome 11 trans integration site Descriptor: 1,2-ETHANEDIOL, CALCIUM ION, DNA (27-MER), ... Authors: Werther, R, Stoddard, B.L. Deposit date: 2019-11-05 Release date: 2019-12-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.533 Å) Cite: Optimization of Protein Thermostability and Exploitation of Recognition Behavior to Engineer Altered Protein-DNA Recognition. Structure, 28, 2020
1IRZ	Solution structure of ARR10-B belonging to the GARP family of plant Myb-related DNA binding motifs of the Arabidopsis response regulators Descriptor: ARR10-B Authors: Yamazaki, T, Katoh, E, Hosoda, K, Mizuno, T. Deposit date: 2001-10-25 Release date: 2003-02-11 Last modified: 2023-12-27 Method: SOLUTION NMR Cite: Molecular structure of the GARP family of plant Myb-related DNA binding motifs of the Arabidopsis response regulators PLANT CELL, 14, 2003
6UWJ	Intermediate engineered variant of I-OnuI meganuclease with improved thermostability and partially altered specificity Descriptor: CALCIUM ION, DNA (27-MER), I-OnuI-e-Therm-hChr11v2 Authors: Werther, R, Stoddard, B.L. Deposit date: 2019-11-05 Release date: 2019-12-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (1.852 Å) Cite: Optimization of Protein Thermostability and Exploitation of Recognition Behavior to Engineer Altered Protein-DNA Recognition. Structure, 28, 2020
6UWH	Intermediate engineered variant of I-OnuI meganuclease with improved thermostability and partially altered specificity Descriptor: 1,2-ETHANEDIOL, CALCIUM ION, DNA (26-MER), ... Authors: Werther, R, Stoddard, B.L. Deposit date: 2019-11-05 Release date: 2019-12-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.299 Å) Cite: Optimization of Protein Thermostability and Exploitation of Recognition Behavior to Engineer Altered Protein-DNA Recognition. Structure, 28, 2020
4QCL	Crystal structure of the catalytic core of human DNA polymerase alpha in ternary complex with an RNA-primed DNA template and dCTP Descriptor: 1,2-ETHANEDIOL, 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA TEMPLATE, ... Authors: Baranovskiy, A.G, Suwa, Y, Babayeva, N.D, Gu, J, Tahirov, T.H. Deposit date: 2014-05-12 Release date: 2014-11-26 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Activity and fidelity of human DNA polymerase alpha depend on primer structure J.Biol.Chem., 2018
8FDQ	An AT-specific DNA 5-CGCAAATTTCGC-3' with benzimidazole (DB1476) complex Descriptor: 4,4'-(1H-benzimidazole-2,6-diyl)di(benzene-1-carboximidamide), DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3'), MAGNESIUM ION Authors: Ogboona, E.N, Wilson, W.D. Deposit date: 2022-12-04 Release date: 2023-02-22 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.54 Å) Cite: X-ray Structure Characterization of the Selective Recognition of AT Base Pair Sequences. Acs Bio Med Chem Au, 3, 2023
6UWG	Engineered variant of I-OnuI meganuclease with improved thermostability and E178D mutation at catalytic site Descriptor: 1,2-ETHANEDIOL, CALCIUM ION, DNA (26-MER), ... Authors: Werther, R, Stoddard, B.L. Deposit date: 2019-11-05 Release date: 2019-12-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.22 Å) Cite: Optimization of Protein Thermostability and Exploitation of Recognition Behavior to Engineer Altered Protein-DNA Recognition. Structure, 28, 2020
6UW0	Engineered variant of I-OnuI meganuclease with improved thermostability and fully altered specificity targeting cholera toxin A subunit Descriptor: 1,2-ETHANEDIOL, CALCIUM ION, DNA (27-MER), ... Authors: Werther, R, Stoddard, B.L. Deposit date: 2019-11-04 Release date: 2019-12-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.72 Å) Cite: Optimization of Protein Thermostability and Exploitation of Recognition Behavior to Engineer Altered Protein-DNA Recognition. Structure, 28, 2020
8INB	Cryo-EM structure of Cas12j-SF05-crRNA-dsDNA complex Descriptor: Cas12j-SF05, NTS-DNA, TS-DNA, ... Authors: Zhang, X, Duan, Z.Q, Zhu, J.K. Deposit date: 2023-03-09 Release date: 2024-03-13 Last modified: 2024-03-20 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Molecular basis for DNA cleavage by the hypercompact Cas12j-SF05. Cell Discov, 9, 2023
1DSM	(-)-duocarmycin SA covalently linked to duplex DNA Descriptor: 4-HYDROXY-8-METHYL-6-(4,5,6-TRIMETHOXY-1H-INDOLE-2-CARBONYL)-3,6,7,8-TETRAHYDRO-3,6-DIAZA-AS-INDACENE-2-CARBOXYLIC ACID METHYL ESTER, 5'-D(*GP*AP*CP*TP*AP*AP*TP*TP*GP*AP*C)-3', 5'-D(*GP*TP*CP*AP*AP*TP*TP*AP*GP*TP*C)-3' Authors: Smith, J.A, Case, D.A, Chazin, W.J. Deposit date: 1999-03-27 Release date: 1999-04-02 Last modified: 2023-12-27 Method: SOLUTION NMR Cite: The structural basis for in situ activation of DNA alkylation by duocarmycin SA J.Mol.Biol., 300, 2000
5J70	The Chd1 DNA-binding domain in complex with 17mer DNA duplex Descriptor: Chromo domain-containing protein 1, DNA (5'-D(*CP*GP*CP*TP*GP*GP*AP*AP*AP*TP*TP*TP*CP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*GP*AP*AP*AP*TP*TP*TP*CP*CP*AP*GP*CP*G)-3') Authors: Bowman, G.D, Jenkins, K.R, Hauk, G. Deposit date: 2016-04-05 Release date: 2017-06-21 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.956 Å) Cite: Chd1 domains communicate across the DNA gyres of the nucleosome To Be Published
3PR5	Dpo4 Y12A mutant incorporating ADP opposite template dT Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*C)-3'), ... Authors: Kirouac, K.N, Ling, H. Deposit date: 2010-11-29 Release date: 2011-02-23 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structural mechanism of ribonucleotide discrimination by a Y-family DNA polymerase. J.Mol.Biol., 407, 2011
7LW7	Human Exonuclease 5 crystal structure Descriptor: 1,2-ETHANEDIOL, Exonuclease V, GLYCEROL, ... Authors: Tsai, C.L, Tainer, J.A. Deposit date: 2021-02-27 Release date: 2021-07-14 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (2.5 Å) Cite: EXO5-DNA structure and BLM interactions direct DNA resection critical for ATR-dependent replication restart. Mol.Cell, 81, 2021
8WH5	Structure of DDM1-nucleosome complex in the apo state Descriptor: ATP-dependent DNA helicase DDM1, DNA (antisense strand), DNA (sense strand), ... Authors: Liu, Y, Zhang, Z, Du, J. Deposit date: 2023-09-22 Release date: 2024-04-17 Method: ELECTRON MICROSCOPY (3.58 Å) Cite: Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024
8WHA	Structure of DDM1-nucleosome complex in the ADP-BeFx state with DDM1 bound to SHL2 and SHL-2 Descriptor: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent DNA helicase DDM1, BERYLLIUM TRIFLUORIDE ION, ... Authors: Liu, Y, Zhang, Z, Du, J. Deposit date: 2023-09-22 Release date: 2024-04-17 Method: ELECTRON MICROSCOPY (4.05 Å) Cite: Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024
4R49	Racemic crystal structure of a calcium-bound B-DNA duplex Descriptor: 5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3', CALCIUM ION, SODIUM ION Authors: Mandal, P.K, Collie, G.W, Kauffmann, B, Huc, I. Deposit date: 2014-08-19 Release date: 2014-11-12 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.28 Å) Cite: Racemic DNA crystallography. Angew.Chem.Int.Ed.Engl., 53, 2014
8WH8	Structure of DDM1-nucleosome complex in ADP state Descriptor: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent DNA helicase DDM1, DNA (antisense strand), ... Authors: Liu, Y, Zhang, Z, Du, J. Deposit date: 2023-09-22 Release date: 2024-04-17 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024
8WH9	Structure of DDM1-nucleosome complex in ADP-BeFx state Descriptor: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent DNA helicase DDM1, BERYLLIUM TRIFLUORIDE ION, ... Authors: Liu, Y, Zhang, Z, Du, J. Deposit date: 2023-09-22 Release date: 2024-04-17 Method: ELECTRON MICROSCOPY (3.31 Å) Cite: Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation. Nat.Plants, 10, 2024

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