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1EFS	CONFORMATION OF A DNA-RNA HYBRID Descriptor: DNA (5'-D(*GP*AP*GP*AP*GP*GP*AP*AP*GP*AP*GP*AP*A)-3'), RNA (5'-R(*UP*UP*CP*UP*CP*UP*UP*CP*CP*UP*CP*UP*C)-3') Authors: Larue, V, Hantz, E. Deposit date: 2000-02-10 Release date: 2000-03-06 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Solution conformation of an RNA--DNA hybrid duplex containing a pyrimidine RNA strand and a purine DNA strand. Int.J.Biol.Macromol., 28, 2001
4ED6	Human DNA polymerase eta - DNA ternary complex: Reaction in the AT crystal at pH 6.7 for 15 hr, Sideway translocation Descriptor: DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*TP*A)-3'), DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Nakamura, T, Zhao, Y, Yang, W. Deposit date: 2012-03-27 Release date: 2012-07-11 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (2.211 Å) Cite: Watching DNA polymerase eta make a phosphodiester bond Nature, 487, 2012
3OQG	Restriction endonuclease HPY188I in complex with substrate DNA Descriptor: CHLORIDE ION, DNA 5'-D(*GP*AP*TP*CP*TP*GP*AP*AP*C)-3', DNA 5'-D(*GP*TP*TP*CP*AP*GP*AP*TP*C)-3', ... Authors: Sokolowska, M, Czapinska, H, Bochtler, M. Deposit date: 2010-09-03 Release date: 2010-10-20 Last modified: 2024-11-27 Method: X-RAY DIFFRACTION (1.75 Å) Cite: Hpy188I-DNA pre- and post-cleavage complexes--snapshots of the GIY-YIG nuclease mediated catalysis. Nucleic Acids Res., 39, 2011
1DRR	DNA/RNA HYBRID DUPLEX CONTAINING A PURINE-RICH DNA STRAND, NMR, 10 STRUCTURES Descriptor: DNA (5'-D(*GP*AP*AP*GP*AP*GP*AP*AP*GP*C)-3'), RNA (5'-R(*GP*CP*UP*UP*CP*UP*CP*UP*UP*C)-3') Authors: Gyi, J.I, Lane, A.N, Conn, G.L, Brown, T. Deposit date: 1997-10-21 Release date: 1998-04-22 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Solution structures of DNA.RNA hybrids with purine-rich and pyrimidine-rich strands: comparison with the homologous DNA and RNA duplexes. Biochemistry, 37, 1998
6IUE	DNA helical wire containing Hg(II) Descriptor: DNA (5'-D(*TP*TP*TP*GP*C)-3'), MERCURY (II) ION Authors: Ono, A, Kanazawa, H, Ito, H, Goto, M, Nakamura, K, Saneyoshi, H, Kondo, J. Deposit date: 2018-11-28 Release date: 2019-10-16 Last modified: 2024-03-27 Method: X-RAY DIFFRACTION (1.901 Å) Cite: A Novel DNA Helical Wire Containing HgII-Mediated T:T and T:G Pairs. Angew.Chem.Int.Ed.Engl., 58, 2019
5YX2	Crystal structure of DNMT3A-DNMT3L in complex with DNA containing two CpG sites Descriptor: DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3A, ... Authors: Zhang, Z.M, Song, J. Deposit date: 2017-12-01 Release date: 2018-01-31 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.653 Å) Cite: Structural basis for DNMT3A-mediated de novo DNA methylation. Nature, 554, 2018
7EAQ	DNA quadruplex composed of i-motif and Z-DNA Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*CP*CP*TP*CP*GP*CP*G)-3') Authors: Kondo, J, Igarashi, Y. Deposit date: 2021-03-08 Release date: 2022-03-09 Last modified: 2024-05-29 Method: X-RAY DIFFRACTION (2.39 Å) Cite: DNA quadruplex composed of i-motif and Z-DNA To Be Published
3JXY	Bacillus cereus Alkylpurine DNA Glycosylase AlkD Bound to DNA Containing a GT Mismatch Descriptor: DNA (5'-D(*CP*CP*CP*GP*TP*TP*AP*GP*TP*CP*CP*G)-3'), DNA (5'-D(*CP*GP*GP*AP*CP*TP*GP*AP*CP*GP*GP*G)-3'), alkylpurine DNA glycosylase AlkD Authors: Rubinson, E.H, Eichman, B.F. Deposit date: 2009-09-21 Release date: 2010-09-22 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.5 Å) Cite: An unprecedented nucleic acid capture mechanism for excision of DNA damage. Nature, 468, 2010
1RRD	DNA/RNA HYBRID DUPLEX CONTAINING A PURINE-RICH RNA STRAND, NMR, 10 STRUCTURES Descriptor: DNA (5'-D(*GP*CP*TP*TP*CP*TP*CP*TP*TP*C)-3'), RNA (5'-R(*GP*AP*AP*GP*AP*GP*AP*AP*GP*C)-3') Authors: Gyi, J.I, Lane, A.N, Conn, G.L, Brown, T. Deposit date: 1997-10-21 Release date: 1998-04-22 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Solution structures of DNA.RNA hybrids with purine-rich and pyrimidine-rich strands: comparison with the homologous DNA and RNA duplexes. Biochemistry, 37, 1998
3JY1	Bacillus cereus Alkylpurine DNA Glycosylase AlkD Bound to DNA Containing an Abasic Site (across from C) Descriptor: DNA (5'-D(*AP*AP*AP*GP*CP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*TP*GP*GP*GP*(3DR)P*GP*GP*CP*TP*T)-3'), alkylpurine DNA glycosylase AlkD Authors: Rubinson, E.H, Eichman, B.F. Deposit date: 2009-09-21 Release date: 2010-09-22 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.754 Å) Cite: An unprecedented nucleic acid capture mechanism for excision of DNA damage. Nature, 468, 2010
3JXZ	Bacillus cereus Alkylpurine DNA Glycosylase AlkD Bound to DNA Containing an Abasic Site (across from T) Descriptor: DNA (5'-D(*AP*AP*AP*GP*CP*CP*TP*CP*CP*C)-3'), DNA (5'-D(*TP*GP*GP*GP*(3DR)P*GP*GP*CP*TP*T)-3'), alkylpurine DNA glycosylase AlkD Authors: Rubinson, E.H, Eichman, B.F. Deposit date: 2009-09-21 Release date: 2010-09-22 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.75 Å) Cite: An unprecedented nucleic acid capture mechanism for excision of DNA damage. Nature, 468, 2010
2ZJT	Crystal structure of dna gyrase B' domain sheds lights on the mechanism for T-segment navigation Descriptor: DNA gyrase subunit B Authors: Fu, G.S, Zhu, D.Y, Hu, Y.L, Wang, D.C. Deposit date: 2008-03-10 Release date: 2009-03-10 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Crystal structure of DNA gyrase B' domain sheds lights on the mechanism for T-segment navigation Nucleic Acids Res., 37, 2009
1EI1	DIMERIZATION OF E. COLI DNA GYRASE B PROVIDES A STRUCTURAL MECHANISM FOR ACTIVATING THE ATPASE CATALYTIC CENTER Descriptor: DNA GYRASE B, GLYCEROL, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, ... Authors: Brino, L, Urzhumtsev, A, Oudet, P, Moras, D. Deposit date: 2000-02-23 Release date: 2000-03-31 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Dimerization of Escherichia coli DNA-gyrase B provides a structural mechanism for activating the ATPase catalytic center. J.Biol.Chem., 275, 2000
5VZL	cryo-EM structure of the Cas9-sgRNA-AcrIIA4 anti-CRISPR complex Descriptor: CRISPR-associated endonuclease Cas9, phage anti-CRISPR AcrIIA4, single guide RNA (116-MER) Authors: Jiang, F, Liu, J.J, Nogales, E, Doudna, J.A. Deposit date: 2017-05-29 Release date: 2017-07-26 Last modified: 2025-05-14 Method: ELECTRON MICROSCOPY (3.9 Å) Cite: Disabling Cas9 by an anti-CRISPR DNA mimic. Sci Adv, 3, 2017
1QZQ	human Tyrosyl DNA phosphodiesterase Descriptor: tyrosyl-DNA phosphodiesterase 1 Authors: Raymond, A.C, Rideout, M.C, Staker, B, Hjerrild, K, Burgin Jr, A.B. Deposit date: 2003-09-17 Release date: 2004-05-11 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Analysis of Human Tyrosyl-DNA Phosphodiesterase I Catalytic Residues. J.Mol.Biol., 338, 2004
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: 2024-10-16 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
219D	DNA/RNA HYBRID DUPLEX (5'-D(*GP*CP*TP*AP*TP*AP*APS*TP*GP*G)-3')(DOT) (5'-R(*CP*CP*AP*UP*UP*AP*UP*AP*GP*C)-3') WITH A PHOSPHOROTHIOATE MOIETY Descriptor: DNA (5'-D(*GP*CP*TP*AP*TP*AP*AP*TP*GP*G)-3'), RNA (5'-R(*CP*CP*AP*UP*UP*AP*UP*AP*GP*C)-3') Authors: Gonzalez, C, James, T.L. Deposit date: 1995-07-25 Release date: 1995-10-15 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structure and dynamics of a DNA.RNA hybrid duplex with a chiral phosphorothioate moiety: NMR and molecular dynamics with conventional and time-averaged restraints. Biochemistry, 34, 1995
1SUU	Structure of DNA gyrase A C-terminal domain Descriptor: DNA gyrase subunit A Authors: Corbett, K.D, Shultzaberger, R.K, Berger, J.M. Deposit date: 2004-03-26 Release date: 2004-04-27 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (1.75 Å) Cite: The C-terminal domain of DNA gyrase A adopts a DNA-bending beta-pinwheel fold. Proc.Natl.Acad.Sci.Usa, 101, 2004
4H5A	DNA octamer D (GTseGTACAC) partially crosslinked with platinum Descriptor: DNA (5'-D(*GP*(2ST)P*GP*GP*CP*CP*AP*C)-3'), PLATINUM (II) ION Authors: Zhang, W, Coronado, G, Huang, Z. Deposit date: 2012-09-18 Release date: 2012-10-03 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.42 Å) Cite: DNA octamer D (GTseGTACAC) partially crosslinked with platinum To be Published
1FJX	STRUCTURE OF TERNARY COMPLEX OF HHAI METHYLTRANSFERASE MUTANT (T250G) IN COMPLEX WITH DNA AND ADOHCY Descriptor: DNA (5'-D(*TP*GP*AP*TP*AP*GP*CP*GP*CP*TP*AP*TP*C)-3'), HHAI DNA METHYLTRANSFERASE, S-ADENOSYL-L-HOMOCYSTEINE, ... Authors: Vilkaitis, G, Dong, A, Weinhold, E, Cheng, X, Klimasauskas, S. Deposit date: 2000-08-08 Release date: 2000-12-15 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.26 Å) Cite: Functional roles of the conserved threonine 250 in the target recognition domain of HhaI DNA methyltransferase. J.Biol.Chem., 275, 2000
2QEG	B-DNA with 7-deaza-dG modification Descriptor: DNA (5'-D(*DCP*DGP*DCP*DGP*DAP*DAP*DTP*DTP*DCP*(7GU)P*DCP*DG)-3') Authors: Wang, F, Li, F, Ganguly, M, Marky, L.A, Gold, B, Egli, M, Stone, M.P. Deposit date: 2007-06-25 Release date: 2008-05-06 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.6 Å) Cite: A bridging water anchors the tethered 5-(3-aminopropyl)-2'-deoxyuridine amine in the DNA major groove proximate to the N+2 C.G base pair: implications for formation of interstrand 5'-GNC-3' cross-links by nitrogen mustards. Biochemistry, 47, 2008
2ADM	ADENINE-N6-DNA-METHYLTRANSFERASE TAQI Descriptor: ADENINE-N6-DNA-METHYLTRANSFERASE TAQI, S-ADENOSYLMETHIONINE Authors: Schluckebier, G, Saenger, W. Deposit date: 1996-07-15 Release date: 1997-01-27 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Differential binding of S-adenosylmethionine S-adenosylhomocysteine and Sinefungin to the adenine-specific DNA methyltransferase M.TaqI. J.Mol.Biol., 265, 1997
1D0Q	STRUCTURE OF THE ZINC-BINDING DOMAIN OF BACILLUS STEAROTHERMOPHILUS DNA PRIMASE Descriptor: DNA PRIMASE, ZINC ION Authors: Pan, H, Wigley, D.B. Deposit date: 1999-09-14 Release date: 2000-03-29 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (1.71 Å) Cite: Structure of the zinc-binding domain of Bacillus stearothermophilus DNA primase. Structure Fold.Des., 8, 2000
1CY7	COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 5'-THYMIDINE MONOPHOSPHATE Descriptor: DNA TOPOISOMERASE I, PHOSPHATE ION, THYMIDINE-5'-PHOSPHATE Authors: Feinberg, H, Changela, A, Mondragon, A. Deposit date: 1999-08-31 Release date: 2000-03-08 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Protein-nucleotide interactions in E. coli DNA topoisomerase I. Nat.Struct.Biol., 6, 1999
1CY4	COMPLEX OF E.COLI DNA TOPOISOMERASE I WITH 5'pTpTpTp3' Descriptor: DNA TOPOISOMERASE I, PHOSPHATE ION, THYMIDINE-5'-PHOSPHATE Authors: Feinberg, H, Changela, A, Mondragon, A. Deposit date: 1999-08-31 Release date: 2000-03-08 Last modified: 2024-05-22 Method: X-RAY DIFFRACTION (2.55 Å) Cite: Protein-nucleotide interactions in E. coli DNA topoisomerase I. Nat.Struct.Biol., 6, 1999

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