2RVE
 
 | | THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA SEGMENTS | | Descriptor: | DNA (5'-D(*CP*GP*AP*GP*CP*TP*CP*G)-3'), PROTEIN (ECO RV (E.C.3.1.21.4)) | | Authors: | Winkler, F.K, Banner, D.W, Oefner, C, Tsernoglou, D, Brown, R.S, Heathman, S.P, Bryan, R.K, Martin, P.D, Petratos, K, Wilson, K.S. | | Deposit date: | 1991-03-19 | | Release date: | 1992-01-15 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | The crystal structure of EcoRV endonuclease and of its complexes with cognate and non-cognate DNA fragments.
EMBO J., 12, 1993
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2RT8
 | | Structure of metallo-dna in solution | | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*TP*TP*GP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*CP*TP*TP*CP*GP*CP*G)-3'), MERCURY (II) ION | | Authors: | Yamaguchi, H, Sebera, J, Kondo, J, Oda, S, Komuro, T, Kawamura, T, Dairaku, T, Kondo, Y, Okamoto, I, Ono, A, Burda, J.V, Kojima, C, Sychrovsky, V, Tanaka, Y. | | Deposit date: | 2013-06-18 | | Release date: | 2014-03-05 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | The structure of metallo-DNA with consecutive thymine-HgII-thymine base pairs explains positive entropy for the metallo base pair formation.
Nucleic Acids Res., 42, 2014
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8DXA
 | | [C:Hg2+/Ag+:C--pH 7] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (4.21 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DXF
 | | [C:Hg2+/Ag+:C--pH 9] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (4.29 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DX5
 | | [C:Hg2+/Ag+:C--pH 5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (5.9 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DX7
 | | [C:Hg2+/Ag+:C--pH 6] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (4.92 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DX9
 | | [C:Hg2+/Ag+:C--pH 6.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (4.55 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DXC
 | | [C:Hg2+/Ag+:C--pH 7.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (5.04 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DXD
 | | [C:Hg2+/Ag+:C--pH 8] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (4.28 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DX1
 | | [C:Hg2+/Ag+:C--pH 7 MOPS] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution in MOPS | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (4.79 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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8DX6
 | | [C:Hg2+/Ag+:C--pH 5.5] Metal-mediated DNA base pair in tensegrity triangle in Ag+ and Hg2+ solution | | Descriptor: | DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*CP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*CP*AP*CP*A)-3'), DNA (5'-D(P*CP*TP*GP*AP*TP*GP*T)-3'), ... | | Authors: | Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. | | Deposit date: | 2022-08-02 | | Release date: | 2023-08-09 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (5.34 Å) | | Cite: | Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals.
J.Am.Chem.Soc., 145, 2023
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6WE1
 | | Wheat dwarf virus Rep domain complexed with a single-stranded DNA 8-mer comprising the cleavage site | | Descriptor: | DNA (5'-D(*AP*AP*TP*AP*TP*TP*AP*C)-3'), MANGANESE (II) ION, Replication-associated protein | | Authors: | Tompkins, K, Litzau, L.A, Pornschloegl, L, Nelson, A.T, Evans III, R.L, Gordon, W.R. | | Deposit date: | 2020-04-01 | | Release date: | 2020-12-16 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.612 Å) | | Cite: | Molecular underpinnings of ssDNA specificity by Rep HUH-endonucleases and implications for HUH-tag multiplexing and engineering.
Nucleic Acids Res., 49, 2021
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1S5J
 | | Insight in DNA Replication: The crystal structure of DNA Polymerase B1 from the archaeon Sulfolobus solfataricus | | Descriptor: | DNA polymerase I, MAGNESIUM ION, SULFATE ION | | Authors: | Savino, C, Federici, L, Nastopoulos, V, Johnson, K.A, Pisani, F.M, Rossi, M, Tsernoglou, D. | | Deposit date: | 2004-01-21 | | Release date: | 2004-11-09 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Insights into DNA replication: the crystal structure of DNA polymerase B1 from the archaeon Sulfolobus solfataricus
Structure, 12, 2004
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6WE0
 | | Wheat dwarf virus Rep domain complexed with a single-stranded DNA 10-mer comprising the cleavage site | | Descriptor: | DNA (5'-D(*TP*AP*AP*TP*AP*TP*TP*AP*CP*C)-3'), MANGANESE (II) ION, Replication-associated protein | | Authors: | Tompkins, K, Litzau, L.A, Shi, K, Nelson, A, Evans III, R.L, Gordon, W.R. | | Deposit date: | 2020-04-01 | | Release date: | 2020-12-16 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Molecular underpinnings of ssDNA specificity by Rep HUH-endonucleases and implications for HUH-tag multiplexing and engineering.
Nucleic Acids Res., 49, 2021
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2QFJ
 | | Crystal Structure of First Two RRM Domains of FIR Bound to ssDNA from a Portion of FUSE | | Descriptor: | DNA (5'-D(*DTP*DCP*DGP*DGP*DGP*DAP*DTP*DTP*DTP*DTP*DTP*DTP*DAP*DTP*DTP*DTP*DTP*DGP*DTP*DGP*DTP*DTP*DAP*DTP*DT)-3'), FBP-interacting repressor | | Authors: | Crichlow, G.V, Yang, Y, Fan, C, Lolis, E, Braddock, D. | | Deposit date: | 2007-06-27 | | Release date: | 2008-03-04 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Dimerization of FIR upon FUSE DNA binding suggests a mechanism of c-myc inhibition
EMBO J., 27, 2007
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2XZF
 | | CRYSTAL STRUCTURE OF A COMPLEX BETWEEN THE WILD-TYPE LACTOCOCCUS LACTIS FPG (MUTM) AND AN OXIDIZED PYRIMIDINE CONTAINING DNA AT 293K | | Descriptor: | 5'-D(*CP*TP*CP*TP*TP*TP*VETP*TP*TP*TP*CP*TP*CP*GP)-3', 5'-D(*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*AP*GP*CP)-3', FORMAMIDOPYRIMIDINE-DNA GLYCOSYLASE, ... | | Authors: | LeBihan, Y.V, Izquierdo, M.A, Coste, F, Culard, F, Gehrke, T.H, Essalhi, K, Aller, P, Carrel, T, Castaing, B. | | Deposit date: | 2010-11-25 | | Release date: | 2011-10-05 | | Last modified: | 2023-12-20 | | Method: | X-RAY DIFFRACTION (1.799 Å) | | Cite: | 5-Hydroxy-5-Methylhydantoin DNA Lesion, a Molecular Trap for DNA Glycosylases
Nucleic Acids Res., 39, 2011
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8H0L
 | | Sulfur binding domain of Hga complexed with phosphorothioated DNA | | Descriptor: | DNA (5'-D(*CP*GP*AP*GP*(PST)P*TP*CP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*GP*AP*AP*CP*TP*CP*G)-3'), MAGNESIUM ION, ... | | Authors: | Liu, G, He, X, Hu, W, Yang, B, Xiao, Q. | | Deposit date: | 2022-09-29 | | Release date: | 2023-09-27 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Characterization of a promiscuous DNA sulfur binding domain and application in site-directed RNA base editing.
Nucleic Acids Res., 51, 2023
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2PVI
 | | PVUII ENDONUCLEASE COMPLEXED TO AN IODINATED COGNATE DNA | | Descriptor: | DNA (5'-D(*TP*GP*AP*CP*CP*AP*GP*(C38)P*TP*GP*GP*TP*C)-3'), TYPE II RESTRICTION ENZYME PVUII | | Authors: | Horton, J, Cheng, X. | | Deposit date: | 1998-11-01 | | Release date: | 1999-12-20 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (1.76 Å) | | Cite: | How is modification of the DNA substrate recognized by the PvuII restriction endonuclease?
J.Biol.Chem., 379, 1998
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6AJO
 | | Complex form of Uracil DNA glycosylase X and uracil-DNA. | | Descriptor: | DNA (5'-D(P*(ORP)P*TP*T)-3'), IRON/SULFUR CLUSTER, PHOSPHATE ION, ... | | Authors: | Ahn, W.C, Aroli, S, Varshney, U, Woo, E.J. | | Deposit date: | 2018-08-28 | | Release date: | 2019-05-29 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.269 Å) | | Cite: | Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.
Nat.Chem.Biol., 15, 2019
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5GHR
 | | DNA replication protein | | Descriptor: | Putative uncharacterized protein, SULFATE ION, SsDNA-specific exonuclease | | Authors: | Oyama, T. | | Deposit date: | 2016-06-20 | | Release date: | 2016-10-12 | | Last modified: | 2017-12-06 | | Method: | X-RAY DIFFRACTION (2.509 Å) | | Cite: | Atomic structure of an archaeal GAN suggests its dual roles as an exonuclease in DNA repair and a CMG component in DNA replication.
Nucleic Acids Res., 44, 2016
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7LNJ
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2LEV
 | | Structure of the DNA complex of the C-Terminal domain of Ler | | Descriptor: | DNA (5'-D(*CP*CP*TP*AP*TP*CP*AP*AP*TP*TP*AP*TP*CP*GP*C)-3'), DNA (5'-D(*GP*CP*GP*AP*TP*AP*AP*TP*TP*GP*AP*TP*AP*GP*G)-3'), Ler | | Authors: | Cordeiro, T.N, Schimdt, H, Madrid, C, Juarez, A, Bernado, P, Grisienger, C, Garcia, J, Pons, M. | | Deposit date: | 2011-06-23 | | Release date: | 2011-12-07 | | Last modified: | 2024-05-01 | | Method: | SOLUTION NMR, SOLUTION SCATTERING | | Cite: | Indirect DNA Readout by an H-NS Related Protein: Structure of the DNA Complex of the C-Terminal Domain of Ler.
Plos Pathog., 7, 2011
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3MDC
 | | DNA polymerase lambda in complex with dFdCTP | | Descriptor: | 2'-deoxy-2',2'-difluorocytidine 5'-(tetrahydrogen triphosphate), DNA (5'-D(*CP*AP*GP*TP*AP*C)-3'), DNA (5'-D(*CP*GP*GP*CP*GP*GP*TP*AP*CP*TP*G)-3'), ... | | Authors: | Garcia-Diaz, M, Murray, M, Kunkel, T, Chou, K.M. | | Deposit date: | 2010-03-30 | | Release date: | 2010-04-28 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (1.999 Å) | | Cite: | Interaction between DNA Polymerase lambda and anticancer nucleoside analogs.
J.Biol.Chem., 285, 2010
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2PRT
 | | Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain Bound to DNA | | Descriptor: | DNA (5'-D(*CP*AP*GP*AP*CP*GP*CP*CP*CP*CP*CP*GP*CP*G)-3'), DNA (5'-D(*CP*GP*CP*GP*GP*GP*GP*GP*CP*GP*TP*CP*TP*G)-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: | 2007-05-04 | | Release date: | 2008-03-04 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (3.15 Å) | | Cite: | Structure of the Wilms tumor suppressor protein zinc finger domain bound to DNA
J.Mol.Biol., 372, 2007
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8U0G
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