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4GZ2	Mus Musculus Tdp2 excluded ssDNA complex Descriptor: DNA (5'-D(*CP*AP*TP*CP*CP*GP*AP*AP*TP*TP*CP*G)-3'), FORMIC ACID, MAGNESIUM ION, ... Authors: Schellenberg, M.J, Williams, R.S. Deposit date: 2012-09-05 Release date: 2012-10-31 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2. Nat.Struct.Mol.Biol., 19, 2012
1YUJ	SOLUTION NMR STRUCTURE OF THE GAGA FACTOR/DNA COMPLEX, 50 STRUCTURES Descriptor: DNA (5'-D(*GP*CP*CP*GP*AP*GP*AP*GP*TP*AP*C)-3'), DNA (5'-D(*GP*TP*AP*CP*TP*CP*TP*CP*GP*GP*C)-3'), GAGA-FACTOR, ... Authors: Clore, G.M, Omichinski, J.G, Gronenborn, A.M. Deposit date: 1996-12-31 Release date: 1997-12-31 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: The solution structure of a specific GAGA factor-DNA complex reveals a modular binding mode. Nat.Struct.Biol., 4, 1997
1YUI	SOLUTION NMR STRUCTURE OF THE GAGA FACTOR/DNA COMPLEX, REGULARIZED MEAN STRUCTURE Descriptor: DNA (5'-D(*GP*CP*CP*GP*AP*GP*AP*GP*TP*AP*C)-3'), DNA (5'-D(*GP*TP*AP*CP*TP*CP*TP*CP*GP*GP*C)-3'), GAGA-FACTOR, ... Authors: Clore, G.M, Omichinski, J.G, Gronenborn, A.M. Deposit date: 1996-12-31 Release date: 1997-12-31 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: The solution structure of a specific GAGA factor-DNA complex reveals a modular binding mode. Nat.Struct.Biol., 4, 1997
121D	MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN Descriptor: DNA (5'-D(*CP*GP*CP*AP*AP*AP*TP*TP*TP*GP*CP*G)-3'), NETROPSIN Authors: Tabernero, L, Verdaguer, N, Coll, M, Fita, I, Van Der Marel, G.A, Van Boom, J.H, Rich, A, Aymami, J. Deposit date: 1993-04-14 Release date: 1994-01-15 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin. Biochemistry, 32, 1993
3C1Z	Structure of the ligand-free form of a bacterial DNA damage sensor protein Descriptor: DNA integrity scanning protein disA Authors: Witte, G, Hartung, S, Buttner, K, Hopfner, K.P. Deposit date: 2008-01-24 Release date: 2008-05-06 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structural Biochemistry of a Bacterial Checkpoint Protein Reveals Diadenylate Cyclase Activity Regulated by DNA Recombination Intermediates Mol.Cell, 30, 2008
4Z6F	Structure of human DNA polymerase beta 279NA mutant complexed with G in the template base paired with incoming non-hydrolyzable TTP and MANGANESE Descriptor: 5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]thymidine, DNA (5'-D(*CP*CP*GP*AP*CP*(6OG)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), ... Authors: Koag, M.-C, Lee, S. Deposit date: 2015-04-04 Release date: 2016-04-13 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.444 Å) Cite: Insights into the effect of minor groove interactions and metal cofactors on mutagenic replication by human DNA polymerase beta. Biochem. J., 475, 2018
4Z6C	Structure of human DNA polymerase beta 279NA mutant complexed with G in the template base paired with incoming non-hydrolyzable CTP Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]cytidine, DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), ... Authors: Koag, M.-C, Lee, S. Deposit date: 2015-04-04 Release date: 2016-04-13 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.677 Å) Cite: Insights into the effect of minor groove interactions and metal cofactors on mutagenic replication by human DNA polymerase beta. Biochem. J., 475, 2018
2VAN	Nucleotidyl Transfer Mechanism of Mismatched dNTP Incorporation by DNA Polymerase b by Structural and Kinetic Analyses Descriptor: DNA POLYMERSE BETA Authors: Chan, H, Chou, C, Tang, K, Niebuhr, M, Tung, C, Tsai, M. Deposit date: 2007-09-03 Release date: 2008-04-15 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Mismatched Dntp Incorporation by DNA Polymerase Beta Does not Proceed Via Globally Different Conformational Pathways. Nucleic Acids Res., 36, 2008
4Z6D	Structure of human DNA polymerase beta 279NA mutant complexed with G in the template base paired with incoming non-hydrolyzable TTP Descriptor: 5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]thymidine, DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), ... Authors: Koag, M.-C, Lee, S. Deposit date: 2015-04-04 Release date: 2016-04-13 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.51 Å) Cite: Insights into the effect of minor groove interactions and metal cofactors on mutagenic replication by human DNA polymerase beta. Biochem. J., 475, 2018
6R92	Cryo-EM structure of NCP-THF2(+1)-UV-DDB class B Descriptor: DNA damage-binding protein 1,DNA damage-binding protein 1, DNA damage-binding protein 2, Histone H2A type 1-B/E, ... Authors: Matsumoto, S, Cavadini, S, Bunker, R.D, Thoma, N.H. Deposit date: 2019-04-02 Release date: 2019-06-12 Last modified: 2024-05-22 Method: ELECTRON MICROSCOPY (4.8 Å) Cite: DNA damage detection in nucleosomes involves DNA register shifting. Nature, 571, 2019
1VTN	CO-CRYSTAL STRUCTURE OF THE HNF-3/FORK HEAD DNA-RECOGNITION MOTIF RESEMBLES HISTONE H5 Descriptor: DNA (5'-D(*GP*AP*CP*TP*AP*AP*GP*TP*CP*AP*AP*CP*C)-3'), DNA (5'-D(*GP*GP*TP*TP*GP*AP*CP*TP*TP*AP*GP*TP*C)-3'), HNF-3/FORK HEAD DNA-RECOGNITION MOTIF, ... Authors: Clark, K.L, Halay, E.D, Lai, E, Burley, S.K. Deposit date: 1995-01-06 Release date: 2011-07-13 Last modified: 2023-12-27 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Co-Crystal Structure of the HNF-3/Fork Head DNA-Recognition Motif Resembles Histone H5 Nature, 364, 1993
4Z6E	Structure of human DNA polymerase beta 279NA mutant complexed with G in the template base paired with incoming non-hydrolyzable TTP and MANGANESE Descriptor: 5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]thymidine, DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), ... Authors: Koag, M.-C, Lee, S. Deposit date: 2015-04-04 Release date: 2016-04-13 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.752 Å) Cite: Insights into the effect of minor groove interactions and metal cofactors on mutagenic replication by human DNA polymerase beta. Biochem. J., 475, 2018
8C7S	Transcriptional pleiotropic repressor CodY from Staphylococcus aureus in complex with Ile, GTP, and a 30-bp DNA fragment encompassing two overlapping binding sites Descriptor: DNA (30-MER), GUANOSINE-5'-TRIPHOSPHATE, Global transcriptional regulator CodY (Fragment), ... Authors: Hainzl, T, Sauer-Eriksson, A.E. Deposit date: 2023-01-17 Release date: 2023-07-19 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (3.05 Å) Cite: Structural insights into CodY activation and DNA recognition. Nucleic Acids Res., 51, 2023
4Y5W	Transcription factor-DNA complex Descriptor: DNA (5'-D(P*AP*TP*GP*GP*AP*TP*TP*TP*CP*CP*TP*AP*GP*GP*AP*AP*GP*AP*CP*AP*A)-3'), DNA (5'-D(P*TP*TP*GP*TP*CP*TP*TP*CP*CP*TP*AP*GP*GP*AP*AP*AP*TP*CP*CP*AP*T)-3'), Signal transducer and activator of transcription 6 Authors: Li, J, Niu, F, Ouyang, S, Liu, Z. Deposit date: 2015-02-12 Release date: 2016-02-17 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (3.104 Å) Cite: Structural basis for DNA recognition by STAT6 Proc.Natl.Acad.Sci.USA, 113, 2016
5NW5	Crystal structure of the Rif1 N-terminal domain (RIF1-NTD) from Saccharomyces cerevisiae in complex with DNA Descriptor: DNA (30-MER), DNA (60-MER), Telomere length regulator protein RIF1 Authors: Bunker, R.D, Reinert, J.K, Shi, T, Thoma, N.H. Deposit date: 2017-05-05 Release date: 2017-06-14 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (6.502 Å) Cite: Rif1 maintains telomeres and mediates DNA repair by encasing DNA ends. Nat. Struct. Mol. Biol., 24, 2017
1K82	Crystal structure of E.coli formamidopyrimidine-DNA glycosylase (Fpg) covalently trapped with DNA Descriptor: 5'-D(*CP*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3', 5'-D(*GP*GP*CP*TP*TP*CP*CP*TP*CP*CP*TP*GP*G)-3', ZINC ION, ... Authors: Gilboa, R, Zharkov, D.O, Golan, G, Fernandes, A.S, Gerchman, S.E, Matz, E, Kycia, J.H, Grollman, A.P, Shoham, G. Deposit date: 2001-10-22 Release date: 2002-06-14 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNA. J.Biol.Chem., 277, 2002
4QGU	protein domain complex with ssDNA Descriptor: DNA (5'-D(P*AP*GP*GP*CP*CP*GP*GP*CP*GP*TP*GP*A)-3'), Gamma-interferon-inducible protein 16 Authors: Ni, X, Ru, H, Zhao, L, Shaw, N, Ding, W, Songying, O, Liu, Z.-J. Deposit date: 2014-05-25 Release date: 2015-06-17 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.545 Å) Cite: New insights into the structural basis of DNA recognition by HINa and HINb domains of IFI16. J Mol Cell Biol, 8, 2016
1PYI	CRYSTAL STRUCTURE OF A PPR1-DNA COMPLEX: DNA RECOGNITION BY PROTEINS CONTAINING A ZN2CYS6 BINUCLEAR CLUSTER Descriptor: DNA (5'-D(*TP*CP*GP*GP*CP*AP*AP*TP*TP*GP*CP*CP*GP*A)-3'), PROTEIN (PYRIMIDINE PATHWAY REGULATOR 1), ZINC ION Authors: Marmorstein, R, Harrison, S.C. Deposit date: 1995-01-04 Release date: 1995-02-27 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (3.2 Å) Cite: Crystal structure of a PPR1-DNA complex: DNA recognition by proteins containing a Zn2Cys6 binuclear cluster. Genes Dev., 8, 1994
8JRB	Structure of DNA polymerase 1 from Aquifex pyrophilus Descriptor: DNA polymerase I Authors: Clement, P, Nair, D.T. Deposit date: 2023-06-16 Release date: 2024-05-22 Method: X-RAY DIFFRACTION (2.2 Å) Cite: A conserved polar residue plays a critical role in mismatch detection in A-family DNA polymerases. Int.J.Biol.Macromol., 269, 2024
132D	SOLUTION STRUCTURE OF THE TN AN DNA DUPLEX GCCGTTAACGGC CONTAINING THE HPA I RESTRICTION SITE Descriptor: DNA (5'-D(P*GP*CP*CP*GP*TP*TP*AP*AP*CP*GP*GP*C)-3') Authors: Kim, S.-G, Reid, B.R. Deposit date: 1993-06-24 Release date: 1994-01-31 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Solution structure of the TnAn DNA duplex GCCGTTAACGCG containing the HpaI restriction site. Biochemistry, 31, 1992
5NL0	Crystal structure of a 197-bp palindromic 601L nucleosome in complex with linker histone H1 Descriptor: DNA (197-MER), Histone H1.0-B, Histone H2A type 1, ... Authors: Garcia-Saez, I, Petosa, C, Dimitrov, S. Deposit date: 2017-04-03 Release date: 2017-05-17 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (5.4 Å) Cite: Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1. Mol. Cell, 66, 2017
6RKW	CryoEM structure of the complete E. coli DNA Gyrase complex bound to a 130 bp DNA duplex Descriptor: (3~{R})-3-[[4-(3,4-dihydro-2~{H}-pyrano[2,3-c]pyridin-6-ylmethylamino)piperidin-1-yl]methyl]-1,4,7-triazatricyclo[6.3.1.0^{4,12}]dodeca-6,8(12),9-triene-5,11-dione, DNA (58-MER), DNA (62-MER), ... Authors: Vanden Broeck, A, Lamour, V. Deposit date: 2019-04-30 Release date: 2019-11-06 Last modified: 2024-05-22 Method: ELECTRON MICROSCOPY (6.6 Å) Cite: Cryo-EM structure of the complete E. coli DNA gyrase nucleoprotein complex. Nat Commun, 10, 2019
6RKS	E. coli DNA Gyrase - DNA binding and cleavage domain in State 1 without TOPRIM insertion Descriptor: (3~{R})-3-[[4-(3,4-dihydro-2~{H}-pyrano[2,3-c]pyridin-6-ylmethylamino)piperidin-1-yl]methyl]-1,4,7-triazatricyclo[6.3.1.0^{4,12}]dodeca-6,8(12),9-triene-5,11-dione, DNA Strand 1, DNA Strand 2, ... Authors: Vanden Broeck, A, Lamour, V. Deposit date: 2019-04-30 Release date: 2019-11-06 Last modified: 2024-05-22 Method: ELECTRON MICROSCOPY (4 Å) Cite: Cryo-EM structure of the complete E. coli DNA gyrase nucleoprotein complex. Nat Commun, 10, 2019
1AN2	RECOGNITION BY MAX OF ITS COGNATE DNA THROUGH A DIMERIC B/HLH/Z DOMAIN Descriptor: DNA (5'-D(*GP*TP*GP*TP*AP*GP*GP*TP*CP*AP*CP*GP*TP*GP*AP*CP*C P*TP*AP*CP*AP*C)- 3'), PROTEIN (TRANSCRIPTION FACTOR MAX (TF MAX)) Authors: Ferre-D'Amare, A.R, Prendergast, G.C, Ziff, E.B, Burley, S.K. Deposit date: 1996-09-06 Release date: 1997-09-17 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Recognition by Max of its cognate DNA through a dimeric b/HLH/Z domain. Nature, 363, 1993
8K86	Crystal structure of NFIL3 in complex with TTATGTAA DNA Descriptor: DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*TP*AP*AP*CP*G)-3'), DNA (5'-D(*CP*GP*TP*TP*AP*CP*AP*TP*AP*AP*TP*G)-3'), Nuclear factor interleukin-3-regulated protein Authors: Min, J.R, Chen, S.Z, Liu, K. Deposit date: 2023-07-28 Release date: 2024-03-06 Last modified: 2024-03-27 Method: X-RAY DIFFRACTION (2.06 Å) Cite: Structural basis for specific DNA sequence recognition by the transcription factor NFIL3. J.Biol.Chem., 300, 2024

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