PDB: 47011 resultsInfo pagesStatus searchChemie searchBIRD

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6M6J	NMR solution structure of a DNA minidumbbell containing an abasic bulge between two CTTG repeats Descriptor: DNA (5'-D(*CP*TP*TP*GP*(3DR)P*CP*TP*TP*G)-3'), SODIUM ION Authors: Wan, L, Lam, S.L, Guo, P. Deposit date: 2020-03-15 Release date: 2020-07-29 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Rational design of a reversible Mg2+/EDTA-controlled molecular switch based on a DNA minidumbbell. Chem.Commun.(Camb.), 56, 2020
2R8J	Structure of the Eukaryotic DNA Polymerase eta in complex with 1,2-d(GpG)-cisplatin containing DNA Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, Cisplatin, ... Authors: Carell, T, Alt, A, Lammens, K. Deposit date: 2007-09-11 Release date: 2007-12-11 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (3.1 Å) Cite: Bypass of DNA lesions generated during anticancer treatment with cisplatin by DNA polymerase eta Science, 318, 2007
4B3P	Structures of HIV-1 RT and RNA-DNA Complex Reveal a Unique RT Conformation and Substrate Interface Descriptor: DNA, P51 RT, REVERSE TRANSCRIPTASE/RIBONUCLEASE H, ... Authors: Lapkouski, M, Tian, L, Miller, J.T, Le Grice, S.F.J, Yang, W. Deposit date: 2012-07-25 Release date: 2013-01-16 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (4.839 Å) Cite: Complexes of HIV-1 RT, Nnrti and RNA/DNA Hybrid Reveal a Structure Compatible with RNA Degradation Nat.Struct.Mol.Biol., 20, 2013
5VY6	A self-assembling D-form DNA crystal lattice Descriptor: DNA (5'-D(*GP*AP*GP*CP*AP*GP*AP*CP*CP*TP*GP*AP*CP*GP*GP*AP*AP*CP*TP*CP*A)-3'), DNA (5'-D(*TP*CP*TP*GP*AP*GP*TP*T)-3'), DNA (5'-D(P*CP*CP*GP*TP*CP*A)-3'), ... Authors: Simmons, C.R, Yan, H. Deposit date: 2017-05-24 Release date: 2017-08-02 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.064 Å) Cite: Tuning the Cavity Size and Chirality of Self-Assembling 3D DNA Crystals. J. Am. Chem. Soc., 139, 2017
5VY7	A self-assembling L-form DNA crystal lattice Descriptor: DNA (5'-D(*GP*AP*GP*CP*AP*GP*AP*CP*CP*TP*GP*AP*CP*GP*GP*AP*AP*CP*TP*CP*A)-3'), DNA (5'-D(*TP*CP*TP*GP*AP*GP*TP*T)-3'), DNA (5'-D(P*CP*CP*GP*TP*CP*A)-3'), ... Authors: Simmons, C.R, Yan, H. Deposit date: 2017-05-24 Release date: 2017-08-09 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3 Å) Cite: Tuning the Cavity Size and Chirality of Self-Assembling 3D DNA Crystals. J. Am. Chem. Soc., 139, 2017
7XM0	Crystal structure of Sau3AI-C and DNA substrate complex Descriptor: DNA (5'-D(*CP*AP*TP*GP*AP*TP*CP*AP*TP*G)-3'), MAGNESIUM ION, Type II restriction enzyme Sau3AI Authors: Liu, Y, Yu, F, He, J. Deposit date: 2022-04-23 Release date: 2023-04-26 Last modified: 2024-11-06 Method: X-RAY DIFFRACTION (2.6 Å) Cite: The crystal structures of Sau3AI with and without bound DNA suggest a self-activation-based DNA cleavage mechanism. Structure, 31, 2023
2JPA	Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to DNA Descriptor: DNA (5'-D(P*DCP*DAP*DGP*DAP*DCP*DGP*DCP*DCP*DCP*DCP*DCP*DGP*DCP*DG)-3'), DNA (5'-D(P*DCP*DGP*DCP*DGP*DGP*DGP*DGP*DGP*DCP*DGP*DTP*DCP*DTP*DG)-3'), Wilms tumor 1, ... Authors: Stoll, R, Lee, B.M, Debler, E.W, Laity, J.H, Wilson, I.A, Dyson, H.J, Wright, P.E. Deposit date: 2007-05-01 Release date: 2007-10-30 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Structure of the wilms tumor suppressor protein zinc finger domain bound to DNA J.Mol.Biol., 372, 2007
7XLW	Crystal structure of a NIR-emitting DNA-stabilized Ag16 nanocluster (G7I/G9I mutant) Descriptor: DNA (5'-D(*CP*AP*CP*CP*TP*AP*IP*CP*IP*A)-3'), SILVER ION Authors: Kondo, J, Cerretani, C, Vosch, T. Deposit date: 2022-04-23 Release date: 2022-07-13 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (1.89 Å) Cite: The effect of inosine on the spectroscopic properties and crystal structure of a NIR-emitting DNA-stabilized silver nanocluster. Nanoscale Adv, 4, 2022
3QBA	Reintroducing Electrostatics into Macromolecular Crystallographic Refinement: Z-DNA (X-ray) Descriptor: Z-DNA Authors: Fenn, T.D, Schnieders, M.J, Mustyakimov, M, Wu, C, Langan, P, Pande, V.S, Brunger, A.T. Deposit date: 2011-01-12 Release date: 2011-03-02 Last modified: 2024-02-21 Method: NEUTRON DIFFRACTION (1.53 Å), X-RAY DIFFRACTION Cite: Reintroducing electrostatics into macromolecular crystallographic refinement: application to neutron crystallography and DNA hydration. Structure, 19, 2011
6M6K	NMR solution structure of a DNA minidumbbell containing an abasic bulge between two CCTG repeats Descriptor: DNA (5'-D(*CP*TP*TP*GP*(3DR)P*CP*TP*TP*G)-3'), SODIUM ION Authors: Wan, L, Lam, S.L, Guo, P. Deposit date: 2020-03-15 Release date: 2020-07-29 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Rational design of a reversible Mg2+/EDTA-controlled molecular switch based on a DNA minidumbbell. Chem.Commun.(Camb.), 56, 2020
4ECW	Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 250 sec Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.896 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
4ECQ	Human DNA polymerase eta- DNA ternary complex: AT crystal at pH6.8(K+ MES) with 1 Ca2+ ion Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*TP*A)-3'), ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
4ED1	Human DNA polymerase eta - DNA ternary complex: AT crystal at pH 7.0 (Na+ MES) with 1 Ca2+ ion Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.806 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
2JP9	Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to DNA Descriptor: DNA (5'-D(P*DCP*DGP*DCP*DGP*DGP*DGP*DGP*DGP*DCP*DGP*DTP*DCP*DTP*DGP*DCP*DGP*DC)-3'), DNA (5'-D(P*DGP*DCP*DGP*DCP*DAP*DGP*DAP*DCP*DGP*DCP*DCP*DCP*DCP*DCP*DGP*DCP*DG)-3'), Wilms tumor 1, ... Authors: Stoll, R, Lee, B.M, Debler, E.W, Laity, J.H, Wilson, I.A, Dyson, H.J, Wright, P.E. Deposit date: 2007-04-30 Release date: 2007-10-30 Last modified: 2024-05-08 Method: SOLUTION NMR Cite: Structure of the wilms tumor suppressor protein zinc finger domain bound to DNA J.Mol.Biol., 372, 2007
457D	MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGMO6AATTCGCG): N6-METHOXYADENOSINE/ THYMIDINE BASE-PAIRS IN B-DNA Descriptor: DNA (5'-D(*CP*GP*CP*GP*(A47)P*AP*TP*TP*CP*GP*CP*G)-3'), MAGNESIUM ION Authors: Chatake, T, Ono, A, Ueno, Y, Matsuda, A, Takenaka, A. Deposit date: 1999-03-06 Release date: 2000-01-01 Last modified: 2023-12-27 Method: X-RAY DIFFRACTION (2 Å) Cite: Crystallographic studies on damaged DNAs. II. N(6)-methoxyadenine can present two alternate faces for Watson-Crick base-pairing, leading to pyrimidine transition mutagenesis. J.Mol.Biol., 294, 1999
4L25	Crystal structure of DNA duplex containing consecutive T-T mispairs Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*TP*TP*TP*CP*GP*CP*G)-3') Authors: Kondo, J, Yamada, T, Hirose, C, Tanaka, Y, Ono, A. Deposit date: 2013-06-04 Release date: 2014-03-05 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (1.1 Å) Cite: Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs Angew.Chem.Int.Ed.Engl., 53, 2014
4ECT	Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 140 sec Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.795 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
4ED0	Human DNA polymerase eta - DNA ternary complex: AT crystal at pH 6.8 (Na+ MES) with 1 Ca2+ ion Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.653 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
4ECS	Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 80 sec Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.951 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
4ECX	Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 7.0 for 300 sec Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.744 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
2L2V	NMR Solution Structures of -3 (3' staggered) Bistranded Abasic Site Lesions in DNA Descriptor: DNA_(5'-D(*CP*AP*GP*CP*TP*AP*TP*GP*(3DR)P*GP*AP*AP*GP*C)-3')_, DNA_(5'-D(*GP*CP*TP*TP*CP*AP*CP*AP*(3DR)P*AP*GP*CP*TP*G)-3')_ Authors: Hazel, R.D, de los Santos, C. Deposit date: 2010-08-27 Release date: 2011-07-13 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: NMR solution structures of clustered abasic site lesions in DNA: structural differences between 3'-staggered (-3) and 5'-staggered (+3) bistranded lesions. Biochemistry, 49, 2010
3VNN	Crystal Structure of a sub-domain of the nucleotidyltransferase (adenylation) domain of human DNA ligase IV Descriptor: DNA ligase 4 Authors: Ochi, T, Wu, Q, Chirgadze, D.Y, Grossmann, J.G, Bolanos-Garcia, V.M, Blundell, T.L. Deposit date: 2012-01-17 Release date: 2012-06-20 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (2.903 Å) Cite: Structural insights into the role of domain flexibility in human DNA ligase IV Structure, 20, 2012
2R8K	Structure of the Eukaryotic DNA Polymerase eta in complex with 1,2-d(GpG)-cisplatin containing DNA Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*DGP*DTP*DGP*DGP*DTP*DGP*DAP*DGP*DC)-3', 5'-D(P*DGP*DGP*DCP*DTP*DCP*DAP*DCP*DCP*DAP*DC)-3', ... Authors: Carell, T, Alt, A, Lammens, K. Deposit date: 2007-09-11 Release date: 2007-12-11 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (3.3 Å) Cite: Bypass of DNA lesions generated during anticancer treatment with cisplatin by DNA polymerase eta Science, 318, 2007
4L26	Crystal structure of DNA duplex containing consecutive T-T mispairs (Br-derivative) Descriptor: DNA (5'-D(*CP*GP*(CBR)P*GP*AP*TP*TP*TP*CP*GP*CP*G)-3') Authors: Kondo, J, Yamada, T, Hirose, C, Tanaka, Y, Ono, A. Deposit date: 2013-06-04 Release date: 2014-03-05 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.4 Å) Cite: Crystal Structure of Metallo DNA Duplex Containing Consecutive Watson-Crick-like T-Hg(II) -T Base Pairs Angew.Chem.Int.Ed.Engl., 53, 2014
4ED3	Human DNA polymerase eta - DNA ternary complex: AT crystal at pH 7.5 (Na+ HEPES) with 1 Ca2+ ion Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-26 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.791 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012

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