6AST
| NMR and Restrained Molecular Dynamics Determination of the Structure of an Aza-Benzimidazole Derivative Complex with the DNA Minor Groove of an -AAGATA Sequence | Descriptor: | DNA (5'-D(*CP*CP*AP*AP*GP*AP*TP*AP*G)-3'), DNA (5'-D(*CP*TP*AP*TP*CP*TP*TP*GP*G)-3'), amino(4-{[(2-{4-[amino(iminio)methyl]phenyl}-3H-imidazo[4,5-b]pyridin-5-yl)oxy]methyl}phenyl)methaniminium | Authors: | Harika, N.K, Germann, M.W, Wilson, W.D. | Deposit date: | 2017-08-25 | Release date: | 2018-01-31 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | First Structure of a Designed Minor Groove Binding Heterocyclic Cation that Specifically Recognizes Mixed DNA Base Pair Sequences. Chemistry, 23, 2017
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4EW4
| mouse MBD4 glycosylase domain in complex with DNA containing a ribose sugar | Descriptor: | DNA (5'-D(*CP*CP*AP*TP*GP*(3DR)P*GP*CP*TP*GP*A)-3'), DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4, ... | Authors: | Hashimoto, H, Zhang, X, Cheng, X. | Deposit date: | 2012-04-26 | Release date: | 2012-07-11 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.791 Å) | Cite: | Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation. Nucleic Acids Res., 40, 2012
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2FLL
| Ternary complex of human DNA polymerase iota with DNA and dTTP | Descriptor: | DNA polymerase iota, DNA primer strand, DNA template strand, ... | Authors: | Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. | Deposit date: | 2006-01-06 | Release date: | 2006-12-12 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site. Structure, 14, 2006
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2SSP
| LEUCINE-272-ALANINE URACIL-DNA GLYCOSYLASE BOUND TO ABASIC SITE-CONTAINING DNA | Descriptor: | DNA (5'-D(*AP*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3'), DNA (5'-D(*CP*TP*GP*TP*(AAB)P*AP*TP*CP*TP*T)-3'), PROTEIN (URACIL-DNA GLYCOSYLASE) | Authors: | Parikh, S.S, Mol, C.D, Slupphaug, G, Bharati, S, Krokan, H.E, Tainer, J.A. | Deposit date: | 1999-04-28 | Release date: | 1999-05-06 | Last modified: | 2023-08-02 | Method: | X-RAY DIFFRACTION (2.25 Å) | Cite: | Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA. EMBO J., 17, 1998
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5F0S
| Crystal structure of C-terminal domain of the human DNA primase large subunit with bound DNA template/RNA primer and manganese ion | Descriptor: | DNA (5'-D(*GP*CP*CP*GP*CP*CP*AP*AP*CP*AP*TP*A)-3'), DNA primase large subunit, IRON/SULFUR CLUSTER, ... | Authors: | Tahirov, T.H, Baranovskiy, A.G, Babayeva, N.D. | Deposit date: | 2015-11-28 | Release date: | 2016-03-23 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Mechanism of Concerted RNA-DNA Primer Synthesis by the Human Primosome. J.Biol.Chem., 291, 2016
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6GN2
| Racemic crystal structure of A-DNA duplex formed from d(CCCGGG) in space group R3 | Descriptor: | DNA (5'-D(*CP*CP*CP*GP*GP*G)-3'), trimethylamine oxide | Authors: | Mandal, P.K, Collie, G.W, Kauffmann, B, Huc, I. | Deposit date: | 2018-05-29 | Release date: | 2019-09-11 | Last modified: | 2024-06-12 | Method: | X-RAY DIFFRACTION (2.48 Å) | Cite: | Racemic crystal structures of A-DNA duplexes. Acta Crystallogr D Struct Biol, 78, 2022
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6RNR
| The crystal structure of a complex between the LlFpg protein, a THF-DNA and an inhibitor | Descriptor: | 2-(trifluoromethyl)-9~{H}-purine-6-thiol, DNA (5'-D(*CP*TP*CP*TP*TP*TP*(3DR)P*TP*TP*TP*CP*TP*CP*G)-3'), DNA (5'-D(*GP*CP*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3'), ... | Authors: | Coste, F, Goffinont, S, Castaing, B. | Deposit date: | 2019-05-09 | Release date: | 2020-04-15 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (2.003 Å) | Cite: | Thiopurine Derivative-Induced Fpg/Nei DNA Glycosylase Inhibition: Structural, Dynamic and Functional Insights. Int J Mol Sci, 21, 2020
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5BNA
| THE PRIMARY MODE OF BINDING OF CISPLATIN TO A B-DNA DODECAMER: C-G-C-G-A-A-T-T-C-G-C-G | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'), PLATINUM TRIAMINE ION | Authors: | Wing, R.M, Pjura, P, Drew, H.R, Dickerson, R.E. | Deposit date: | 1983-08-22 | Release date: | 1983-11-02 | Last modified: | 2024-03-06 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | The primary mode of binding of cisplatin to a B-DNA dodecamer: C-G-C-G-A-A-T-T-C-G-C-G EMBO J., 3, 1984
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5IV1
| Solution Structure of DNA Dodecamer with 8-oxoguanine at 4th Position | Descriptor: | DNA (5'-D(*CP*GP*CP*(8OG)P*AP*AP*TP*TP*CP*GP*CP*G)-3') | Authors: | Miears, H.L, Gruber, D.R, Hoppins, J.J, Kiryutin, A.S, Kasymov, R.D, Yurkovskaya, A.V, Zharkov, D.O, Smirnov, S.L. | Deposit date: | 2016-03-18 | Release date: | 2016-07-27 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | 8-Oxoguanine Affects DNA Backbone Conformation in the EcoRI Recognition Site and Inhibits Its Cleavage by the Enzyme. Plos One, 11, 2016
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5CRX
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6QXF
| Cas1-Cas2-Csn2-DNA complex from the Type II-A CRISPR-Cas system | Descriptor: | CALCIUM ION, CRISPR-associated endonuclease Cas1, CRISPR-associated endoribonuclease Cas2, ... | Authors: | Wilkinson, M, Drabavicius, G, Silanskas, A, Gasiunas, G, Siksnys, V, Wigley, D.B. | Deposit date: | 2019-03-07 | Release date: | 2019-05-08 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (3.6 Å) | Cite: | Structure of the DNA-Bound Spacer Capture Complex of a Type II CRISPR-Cas System. Mol.Cell, 75, 2019
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1JQR
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2FLN
| binary complex of catalytic core of human DNA polymerase iota with DNA (template A) | Descriptor: | DNA polymerase iota, DNA primer strand, DNA template strand | Authors: | Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. | Deposit date: | 2006-01-06 | Release date: | 2006-12-05 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site. Structure, 14, 2006
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4HKQ
| XMRV reverse transcriptase in complex with RNA/DNA hybrid | Descriptor: | DNA (5'-D(*TP*GP*GP*AP*AP*TP*CP*A*GP*GP*TP*GP*TP*CP*GP*CP*AP*CP*TP*CP*TP*G)-3'), RNA (5'-R(*AP*AP*CP*AP*GP*AP*GP*UP*GP*CP*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*CP*CP*AP*U)-3'), Reverse transcriptase/ribonuclease H p80 | Authors: | Nowak, E, Potrzebowski, W, Konarev, P.V, Rausch, J.W, Bona, M.K, Svergun, D.I, Bujnicki, J.M, Le Grice, S.F.J, Nowotny, M. | Deposit date: | 2012-10-15 | Release date: | 2013-02-20 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.04 Å) | Cite: | Structural analysis of monomeric retroviral reverse transcriptase in complex with an RNA/DNA hybrid Nucleic Acids Res., 41, 2013
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2P5O
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2P5G
| Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | Descriptor: | DNA polymerase, Primer DNA, Template DNA | Authors: | Zahn, K.E, Belrhali, H, Wallace, S.S, Doublie, S. | Deposit date: | 2007-03-15 | Release date: | 2007-10-23 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Caught bending the a-rule: crystal structures of translesion DNA synthesis with a non-natural nucleotide. Biochemistry, 46, 2007
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3F27
| Structure of Sox17 Bound to DNA | Descriptor: | DNA (5'-D(*DCP*DCP*DAP*DGP*DGP*DAP*DCP*DAP*DAP*DTP*DAP*DGP*DAP*DGP*DAP*DC)-3'), DNA (5'-D(*DGP*DTP*DCP*DTP*DCP*DTP*DAP*DTP*DTP*DGP*DTP*DCP*DCP*DTP*DGP*DG)-3'), Transcription factor SOX-17 | Authors: | Palasingam, P, Jauch, R, Ng, C.K.L, Kolatkar, P.R. | Deposit date: | 2008-10-29 | Release date: | 2009-04-07 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | The Structure of Sox17 Bound to DNA Reveals a Conserved Bending Topology but Selective Protein Interaction Platforms J.Mol.Biol., 388, 2009
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2LEF
| LEF1 HMG DOMAIN (FROM MOUSE), COMPLEXED WITH DNA (15BP), NMR, 12 STRUCTURES | Descriptor: | DNA (5'-D(*CP*AP*CP*CP*CP*TP*TP*TP*GP*AP*AP*GP*CP*TP*C)-3'), DNA (5'-D(*GP*AP*GP*CP*TP*TP*CP*AP*AP*AP*GP*GP*GP*TP*G)-3'), PROTEIN (LYMPHOID ENHANCER-BINDING FACTOR) | Authors: | Li, X, Love, J.J, Case, D.A, Wright, P.E. | Deposit date: | 1998-10-13 | Release date: | 1998-10-21 | Last modified: | 2023-12-27 | Method: | SOLUTION NMR | Cite: | Structural basis for DNA bending by the architectural transcription factor LEF-1. Nature, 376, 1995
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3KGV
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8H7A
| Crystal structure of the dimer form KAT6A WH domain with its bound double stranded DNA | Descriptor: | DNA (5'-D(*GP*GP*TP*CP*CP*GP*AP*CP*GP*GP*AP*CP*C)-3'), DNA (5'-D(*GP*GP*TP*CP*CP*GP*TP*CP*GP*GP*AP*CP*C)-3'), Histone acetyltransferase KAT6A, ... | Authors: | Wang, Z, Cao, Y. | Deposit date: | 2022-10-19 | Release date: | 2023-01-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.92 Å) | Cite: | The histone acetyltransferase KAT6A is recruited to unmethylated CpG islands via a DNA binding winged helix domain. Nucleic Acids Res., 51, 2023
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6RP0
| The crystal structure of a complex between the LlFpg protein, a THF-DNA and an inhibitor | Descriptor: | 2,8-dithioxo-1,2,3,7,8,9-hexahydro-6H-purin-6-one, DNA (5'-D(*CP*TP*CP*TP*TP*TP*(3DR)P*TP*TP*TP*CP*TP*CP*G)-3'), DNA (5'-D(*GP*CP*GP*AP*GP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3'), ... | Authors: | Coste, F, Goffinont, S, Castaing, B. | Deposit date: | 2019-05-13 | Release date: | 2020-04-15 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (2.25 Å) | Cite: | Thiopurine Derivative-Induced Fpg/Nei DNA Glycosylase Inhibition: Structural, Dynamic and Functional Insights. Int J Mol Sci, 21, 2020
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6GCF
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7TZ1
| Crystal Structure of a Mycobacteriophage Cluster A2 Immunity Repressor:DNA Complex | Descriptor: | DNA (5'-D(P*CP*CP*CP*GP*CP*TP*TP*GP*AP*CP*AP*GP*CP*CP*AP*CP*CP*GP*AP*AP*A)-3'), DNA (5'-D(P*TP*TP*TP*CP*GP*GP*TP*GP*GP*CP*TP*GP*TP*CP*AP*AP*GP*CP*GP*GP*G)-3'), Immunity repressor | Authors: | McGinnis, R.J, Brambley, C.A, Stamey, B, Green, W.C, Gragg, K.N, Cafferty, E.R, Terwilliger, T.C, Hammel, M, Hollis, T.J, Miller, J.M, Gainey, M.D, Wallen, J.R. | Deposit date: | 2022-02-15 | Release date: | 2022-07-20 | Last modified: | 2022-07-27 | Method: | X-RAY DIFFRACTION (2.79 Å) | Cite: | A monomeric mycobacteriophage immunity repressor utilizes two domains to recognize an asymmetric DNA sequence. Nat Commun, 13, 2022
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5F0Q
| Crystal structure of C-terminal domain of the human DNA primase large subunit with bound DNA template/RNA primer | Descriptor: | DNA (5'-D(*GP*CP*CP*GP*CP*CP*AP*AP*CP*AP*TP*A)-3'), DNA primase large subunit, IRON/SULFUR CLUSTER, ... | Authors: | Tahirov, T.H, Baranovskiy, A.G, Babayeva, N.D. | Deposit date: | 2015-11-28 | Release date: | 2016-03-23 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (2.21 Å) | Cite: | Mechanism of Concerted RNA-DNA Primer Synthesis by the Human Primosome. J.Biol.Chem., 291, 2016
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8C41
| High resolution structure of the Streptococcus pneumoniae topoisomerase IV-DNA complex with the novel fluoroquinolone Delafloxacin | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CHLORIDE ION, DNA (5'-D(*CP*AP*TP*GP*AP*AP*T)-3'), ... | Authors: | Najmudin, S, Pan, X.S, Wang, B, Chayen, N.E, Fisher, L.M, Sanderson, M.R. | Deposit date: | 2022-12-30 | Release date: | 2024-01-10 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (2.393 Å) | Cite: | The nature of the molecular interactions at high resolution of the Streptococcus pneumoniae topoisomerase IV-DNA complex with the novel fluoroquinolone Delafloxacin. To Be Published
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