PDB: 46169 resultsInfo pagesStatus searchChemie searchBIRD

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5BZ9	X-ray crystal structure of a continuously hydrogen bonded 14mer DNA lattice. Descriptor: DNA (5'-D(GGAAACGTTGGAGA), MAGNESIUM ION Authors: Saoji, M, Paukstelis, P.J. Deposit date: 2015-06-11 Release date: 2015-11-11 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Sequence-dependent structural changes in a self-assembling DNA oligonucleotide. Acta Crystallogr.,Sect.D, 71, 2015
8G5N	Cryo-EM structure of the Guide loop Engagement Complex (VI) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.73 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5K	Cryo-EM structure of the Wedge Alignment Complex (VIII) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.9 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5M	Cryo-EM structure of the Mismatch Locking Complex (III) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.58 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5P	Cryo-EM structure of the Guide loop Engagement Complex (V) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.78 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5I	Cryo-EM structure of the Mismatch Sensing Complex (I) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.75 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5J	Cryo-EM structure of the Mismatch Uncoupling Complex (II) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.63 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5L	Cryo-EM structure of the Primer Separation Complex (IX) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (3 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
8G5O	Cryo-EM structure of the Guide loop Engagement Complex (IV) of Human Mitochondrial DNA Polymerase Gamma Descriptor: DNA polymerase subunit gamma-1, DNA polymerase subunit gamma-2, mitochondrial, ... Authors: Nayak, A.R, Buchel, G, Herbine, K.H, Sarfallah, A, Sokolova, V.O, Zamudio-Ochoa, A, Temiakov, D. Deposit date: 2023-02-13 Release date: 2024-01-10 Method: ELECTRON MICROSCOPY (2.61 Å) Cite: Structural basis for DNA proofreading. Nat Commun, 14, 2023
6UEF	Crystal Structure of a Self-Assembling DNA Scaffold Containing Sequence Modifications to Attempt to Disrupt Crystal Contacts in a Rhombohedral Lattice. Descriptor: DNA (5'-D(*CP*AP*AP*TP*GP*AP*CP*TP*CP*AP*TP*GP*CP*TP*CP*AP*TP*CP*GP*GP*A)-3'), DNA (5'-D(*TP*GP*TP*CP*CP*GP*AP*TP*G)-3'), DNA (5'-D(P*AP*GP*CP*AP*TP*GP*A)-3'), ... Authors: Simmons, C.R, MacCulloch, T, Stephanopoulos, N, Yan, H. Deposit date: 2019-09-20 Release date: 2020-09-23 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.95 Å) Cite: A Self-Assembled Rhombohedral DNA Crystal Scaffold with Tunable Cavity Sizes and High-Resolution Structural Detail. Angew.Chem.Int.Ed.Engl., 59, 2020
7XH3	Dimeric G-quadruplex DNA Formed in the Proximal Promoter of VEGFR-2 Descriptor: DNA (5'-D(*CP*CP*GP*GP*GP*TP*AP*CP*CP*CP*GP*G)-3') Authors: Zhang, Y, Lan, W, Wang, C, Cao, C. Deposit date: 2022-04-07 Release date: 2023-02-15 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Dimeric G-quadruplex DNA Structure in the Proximal Promoter of VEGFR-2 Reveals a New Drug Target to Inhibit Tumor Angiogenesis. Chin.J.Chem., 40, 2022
6AEQ	Crystal structure of the ssDNA-binding domain of DnaT from Salmonella enterica Serovar Typhimurium LT2 Descriptor: Primosomal protein 1 Authors: Huang, Y.H, Huang, C.Y. Deposit date: 2018-08-06 Release date: 2019-03-20 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.2518084 Å) Cite: Crystal structure of the C-terminal domain of the primosomal DnaT protein: Insights into a new oligomerization mechanism. Biochem. Biophys. Res. Commun., 511, 2019
6A5N	Crystal structure of Arabidopsis thaliana SUVH6 in complex with methylated DNA Descriptor: DNA (5'-D(*CP*AP*CP*TP*GP*CP*TP*GP*AP*GP*TP*AP*CP*T)-3'), DNA (5'-D(*GP*AP*GP*TP*AP*CP*TP*(5CM)P*AP*GP*CP*AP*GP*T)-3'), Histone-lysine N-methyltransferase, ... Authors: Li, X, Du, J. Deposit date: 2018-06-24 Release date: 2018-08-29 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Mechanistic insights into plant SUVH family H3K9 methyltransferases and their binding to context-biased non-CG DNA methylation. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
5UGO	DNA polymerase beta nick complex with imidodiphosphate Descriptor: CALCIUM ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*C)-3'), ... Authors: Freudenthal, B.D, Wilson, S.H, Beard, W.A. Deposit date: 2017-01-09 Release date: 2017-07-26 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (1.897 Å) Cite: Modulating the DNA polymerase beta reaction equilibrium to dissect the reverse reaction. Nat. Chem. Biol., 13, 2017
5U8H	DNA Polymerase Beta G231D crystallized in PEG 400 Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(*GP*TP*CP*GP*G)-3'), ... Authors: Eckenroth, B.E, Doublie, S. Deposit date: 2016-12-14 Release date: 2017-04-26 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (2.155 Å) Cite: Remote Mutations Induce Functional Changes in Active Site Residues of Human DNA Polymerase beta. Biochemistry, 56, 2017
6TZS	A DNA i-motif/duplex hybrid Descriptor: DNA (5'-D(*CP*CP*AP*GP*GP*CP*TP*GP*(CBR)P*AP*A)-3') Authors: Chu, B, Paukstelis, P.J. Deposit date: 2019-08-13 Release date: 2019-10-16 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.6 Å) Cite: A DNA G-quadruplex/i-motif hybrid. Nucleic Acids Res., 47, 2019
5Y7Q	Crystal structure of paFAN1 bound to 2nt 5'flap DNA with gap Descriptor: DNA (5'-D(*TP*TP*CP*AP*CP*AP*CP*AP*TP*TP*CP*AP*A)-3'), DNA (5'-D(P*GP*AP*AP*TP*GP*TP*GP*TP*GP*TP*CP*TP*CP*AP*AP*TP*CP*CP*CP*AP*AP*CP*TP*T)-3'), DNA (5'-D(P*GP*TP*TP*GP*GP*GP*AP*TP*TP*G)-3'), ... Authors: Jin, H, Cho, Y. Deposit date: 2017-08-17 Release date: 2018-03-14 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Structural mechanism of DNA interstrand cross-link unhooking by the bacterial FAN1 nuclease. J. Biol. Chem., 293, 2018
5Z6W	Crystal structure of paFAN1 bound to 2nt 5'flap DNA with gap with Manganese Descriptor: DNA (5'-D(P*AP*TP*TP*CP*AP*A)-3'), DNA (5'-D(P*GP*AP*AP*TP*GP*TP*GP*TP*CP*TP*CP*AP*AP*TP*CP*CP*CP*AP*AP*CP*TP*T)-3'), DNA (5'-D(P*GP*TP*TP*GP*GP*GP*AP*TP*TP*G)-3'), ... Authors: Jin, H, Cho, Y. Deposit date: 2018-01-25 Release date: 2018-03-14 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (3.2 Å) Cite: Structural mechanism of DNA interstrand cross-link unhooking by the bacterial FAN1 nuclease. J. Biol. Chem., 293, 2018
5ZB2	Crystal structure of Rad7 and Elc1 complex in yeast Descriptor: 2-(2-METHOXYETHOXY)ETHANOL, 3,6,9,12,15,18,21,24,27,30,33,36,39,42,45,48,51,54,57-nonadecaoxanonapentacontane-1,59-diol, 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL, ... Authors: Jiang, T, Liu, L, Huo, Y. Deposit date: 2018-02-09 Release date: 2019-02-27 Last modified: 2024-03-27 Method: X-RAY DIFFRACTION (2.30000544 Å) Cite: Crystal structure of the yeast Rad7-Elc1 complex and assembly of the Rad7-Rad16-Elc1-Cul3 complex. DNA Repair (Amst.), 77, 2019
4QWC	Ternary Crystal Structures of a Y-family DNA polymerase DPO4 from Sulfobus Solfataricus in Comples with DNA and L-DCDP Descriptor: 4-amino-1-{2-deoxy-5-O-[(R)-hydroxy(phosphonooxy)phosphoryl]-beta-L-erythro-pentofuranosyl}pyrimidin-2(1H)-one, ACETATE ION, CALCIUM ION, ... Authors: Vyas, R, Suo, Z. Deposit date: 2014-07-16 Release date: 2014-08-27 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase. Nucleic Acids Res., 42, 2014
6UR2	DNA polymerase I Large Fragment from Bacillus stearothermophilus with DNA template and primer containing an N3'-> P5' linkage Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*(C42)P*G)-3'), DNA (5'-D(P*AP*CP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I Authors: Zhang, W, Lelyveld, V.S, Szostak, J.W. Deposit date: 2019-10-21 Release date: 2020-03-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.27 Å) Cite: Synthesis of phosphoramidate-linked DNA by a modified DNA polymerase. Proc.Natl.Acad.Sci.USA, 117, 2020
6UR4	DNA polymerase I Large Fragment from Bacillus stearothermophilus with DNA template and 3'-amino primer Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*GP*(C42))-3'), DNA (5'-D(P*CP*GP*CP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I Authors: Zhang, W, Lelyveld, V.S, Szostak, J.W. Deposit date: 2019-10-22 Release date: 2020-03-18 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.25 Å) Cite: Synthesis of phosphoramidate-linked DNA by a modified DNA polymerase. Proc.Natl.Acad.Sci.USA, 117, 2020
4RTS	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with AdoMet and a 5-bp non-canonical site (GTCTA) Descriptor: DNA (5'-D(*AP*CP*TP*TP*AP*GP*AP*CP*TP*TP*AP*G)-3'), DNA (5'-D(*TP*CP*TP*AP*AP*GP*TP*CP*TP*AP*AP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.49 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
4RTO	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with Sinefungin and with DNA Containing Proximal Pap Regulon Sequence Descriptor: DNA (5'-D(*AP*CP*GP*AP*TP*CP*TP*TP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*AP*AP*AP*GP*AP*TP*CP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.69 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
4RTR	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with AdoMet and a 5-bp non-canonical site (GTTTA ) Descriptor: DNA (5'-D(*AP*CP*TP*TP*AP*AP*AP*CP*TP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*AP*AP*GP*TP*TP*TP*AP*AP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.393 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015

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