4X9J
 
 | | EGR-1 with Doubly Methylated DNA | | Descriptor: | DNA (5'-D(*AP*GP*(5CM)P*GP*TP*GP*GP*GP*(5CM)P*GP*T)-3'), DNA (5'-D(*TP*AP*(5CM)P*GP*CP*CP*CP*AP*(5CM)P*GP*C)-3'), Early growth response protein 1, ... | | Authors: | White, M.A, Zandarashvili, L, Iwahara, J. | | Deposit date: | 2014-12-11 | | Release date: | 2015-05-13 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (1.412 Å) | | Cite: | Structural impact of complete CpG methylation within target DNA on specific complex formation of the inducible transcription factor Egr-1.
Febs Lett., 589, 2015
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7KR3
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7KR4
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4OD8
 | | Crystal structure of the vaccinia virus DNA polymerase holoenzyme subunit D4 in complex with the A20 N-terminus | | Descriptor: | DNA polymerase processivity factor component A20, GLYCEROL, SULFATE ION, ... | | Authors: | Contesto-Richefeu, C, Tarbouriech, N, Brazzolotto, X, Burmeister, W.P, Iseni, F. | | Deposit date: | 2014-01-10 | | Release date: | 2014-03-26 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Crystal structure of the vaccinia virus DNA polymerase holoenzyme subunit d4 in complex with the a20 N-terminal domain.
Plos Pathog., 10, 2014
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5GWJ
 | | Structure of a Human topoisomerase IIbeta fragment in complex with DNA and E7873S | | Descriptor: | DNA (5'-D(P*AP*GP*CP*CP*GP*AP*GP*C)-3'), DNA (5'-D(P*TP*GP*CP*AP*GP*CP*TP*CP*GP*GP*CP*T)-3'), DNA topoisomerase 2-beta, ... | | Authors: | Wang, Y.R, Chen, S.F, Wu, C.C, Chan, N.L. | | Deposit date: | 2016-09-12 | | Release date: | 2017-08-23 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.566 Å) | | Cite: | Producing irreversible topoisomerase II-mediated DNA breaks by site-specific Pt(II)-methionine coordination chemistry
Nucleic Acids Res., 45, 2017
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1GTC
 | | HUMAN IMMUNODEFICIENCY VIRUS-1 OKAZAKI FRAGMENT, DNA-RNA CHIMERA, NMR, 11 STRUCTURES | | Descriptor: | DNA (5'-D(*GP*CP*AP*GP*TP*GP*GP*C)-3'), DNA/RNA (5'-R(*GP*CP*CP*A)-D(P*CP*TP*GP*C)-3') | | Authors: | Fedoroff, O.Y, Salazar, M, Reid, B.R. | | Deposit date: | 1996-06-13 | | Release date: | 1996-12-23 | | Last modified: | 2024-05-22 | | Method: | SOLUTION NMR | | Cite: | Structural variation among retroviral primer-DNA junctions: solution structure of the HIV-1 (-)-strand Okazaki fragment r(gcca)d(CTGC).d(GCAGTGGC).
Biochemistry, 35, 1996
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2RMQ
 | | Solution structure of fully modified 4'-thioDNA with the sequence of d(CGCGAATTCGCG) | | Descriptor: | DNA (5'-D(*(C4S)P*(S4G)P*(C4S)P*(S4G)P*(S4A)P*(S4A)P*(T49)P*(T49)P*(C4S)P*(S4G)P*(C4S)P*(S4G))-3') | | Authors: | Matsugami, A, Ohyama, T, Inada, M, Katahira, M. | | Deposit date: | 2007-11-12 | | Release date: | 2008-04-15 | | Last modified: | 2024-05-29 | | Method: | SOLUTION NMR | | Cite: | Unexpected A-form formation of 4'-thioDNA in solution, revealed by NMR, and the implications as to the mechanism of nuclease resistance
Nucleic Acids Res., 36, 2008
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8SVA
 | | Structure of the Rhodococcus sp. USK13 DarR-20 bp DNA complex | | Descriptor: | DNA (5'-D(*TP*AP*GP*AP*TP*AP*CP*TP*CP*CP*GP*GP*AP*GP*TP*AP*TP*CP*TP*A)-3'), PHOSPHATE ION, TetR/AcrR family transcriptional regulator | | Authors: | Schumacher, M.A. | | Deposit date: | 2023-05-15 | | Release date: | 2023-11-01 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (2.96 Å) | | Cite: | Structures of the DarR transcription regulator reveal unique modes of second messenger and DNA binding.
Nat Commun, 14, 2023
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6GAU
 | | Extremely 'open' clamp structure of DNA gyrase: role of the Corynebacteriales GyrB specific insert | | Descriptor: | DNA gyrase subunit B,DNA gyrase subunit A, MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER | | Authors: | Petrella, S, Capton, E, Alzari, P.M, Aubry, A, Mayer, C. | | Deposit date: | 2018-04-12 | | Release date: | 2019-02-20 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Overall Structures of Mycobacterium tuberculosis DNA Gyrase Reveal the Role of a Corynebacteriales GyrB-Specific Insert in ATPase Activity.
Structure, 27, 2019
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3K4X
 | | Eukaryotic Sliding Clamp PCNA Bound to DNA | | Descriptor: | DNA (5'-D(*CP*CP*CP*AP*TP*CP*GP*TP*AP*T)-3'), DNA (5'-D(*TP*TP*TP*TP*AP*TP*AP*CP*GP*AP*TP*GP*GP*G)-3'), Proliferating cell nuclear antigen | | Authors: | McNally, R, Kuriyan, J. | | Deposit date: | 2009-10-06 | | Release date: | 2010-02-16 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (2.98 Å) | | Cite: | Analysis of the role of PCNA-DNA contacts during clamp loading.
Bmc Struct.Biol., 10, 2010
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1VTD
 | | UNUSUAL HELICAL PACKING IN CRYSTALS OF DNA BEARING A MUTATION HOT SPOT | | Descriptor: | DNA (5'-D(*AP*CP*CP*GP*GP*CP*GP*CP*CP*AP*CP*A)-3'), DNA (5'-D(*TP*GP*TP*GP*GP*CP*GP*CP*CP*GP*GP*T)-3') | | Authors: | Timsit, Y, Westhof, E, Fuchs, R.P.P, Moras, D. | | Deposit date: | 1996-12-12 | | Release date: | 2011-07-13 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Unusual helical packing in crystals of DNA bearing a mutation hot spot.
Nature, 341, 1989
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1VTV
 | | Molecular structure of (M5DC-DG)3: The role of the methyl group on 5-methyl cytosine in stabilizing Z-DNA | | Descriptor: | DNA (5'-D(*(CH3)CP*GP*(CH3)CP*GP*(CH3)CP*G)-3') | | Authors: | Fujii, S, Wang, A.H.-J, Van Der Marel, G.A, Van Boom, J.H, Rich, A. | | Deposit date: | 1989-01-10 | | Release date: | 2011-07-13 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.3 Å) | | Cite: | Molecular Structure of (m5dC-dG)3: The Role of the Methyl Group on 5-Methyl Cytosine in Stabilizing Z-DNA
Nucleic Acids Res., 10, 1982
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1CF7
 | | STRUCTURAL BASIS OF DNA RECOGNITION BY THE HETERODIMERIC CELL CYCLE TRANSCRIPTION FACTOR E2F-DP | | Descriptor: | DNA (5'-D(*AP*TP*TP*TP*TP*CP*GP*CP*GP*CP*GP*GP*TP*TP*TP*T)-3'), DNA (5'-D(*TP*AP*AP*AP*AP*CP*CP*GP*CP*GP*CP*GP*AP*AP*AP*A)-3'), PROTEIN (TRANSCRIPTION FACTOR DP-2), ... | | Authors: | Zheng, N, Fraenkel, E, Pabo, C.O, Pavletich, N.P. | | Deposit date: | 1999-03-24 | | Release date: | 1999-04-02 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structural basis of DNA recognition by the heterodimeric cell cycle transcription factor E2F-DP.
Genes Dev., 13, 1999
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5L6L
 | | Structure of Caulobacter crescentus VapBC1 bound to operator DNA | | Descriptor: | DNA (27-MER), Ribonuclease VapC, VapB family protein | | Authors: | Bendtsen, K.L, Xu, K, Luckmann, M, Brodersen, D.E. | | Deposit date: | 2016-05-30 | | Release date: | 2016-12-28 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Toxin inhibition in C. crescentus VapBC1 is mediated by a flexible pseudo-palindromic protein motif and modulated by DNA binding.
Nucleic Acids Res., 45, 2017
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6U15
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2KEJ
 | | Solution structure of a dimer of LAC repressor DNA-binding domain complexed to its natural operator O2 | | Descriptor: | DNA (5'-D(*GP*AP*AP*AP*TP*GP*TP*GP*AP*GP*CP*GP*AP*GP*TP*AP*AP*CP*AP*AP*CP*CP*G)-3'), DNA (5'-D(P*CP*GP*GP*TP*TP*GP*TP*TP*AP*CP*TP*CP*GP*CP*TP*CP*AP*CP*AP*TP*TP*TP*C)-3'), Lactose operon repressor | | Authors: | Romanuka, J, Folkers, G, Biris, N, Tishchenko, E, Wienk, H, Kaptein, R, Boelens, R. | | Deposit date: | 2009-01-30 | | Release date: | 2009-05-19 | | Last modified: | 2021-10-20 | | Method: | SOLUTION NMR | | Cite: | Specificity and affinity of Lac repressor for the auxiliary operators O2 and O3 are explained by the structures of their protein-DNA complexes.
J.Mol.Biol., 390, 2009
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1A0A
 | | PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4/DNA COMPLEX | | Descriptor: | DNA (5'-D(*CP*TP*AP*GP*TP*CP*CP*CP*AP*CP*GP*TP*GP*TP*GP*AP*G )-3'), DNA (5'-D(*CP*TP*CP*AP*CP*AP*CP*GP*TP*GP*GP*GP*AP*CP*TP*AP*G )-3'), PROTEIN (PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4) | | Authors: | Shimizu, T, Toumoto, A, Ihara, K, Shimizu, M, Kyogoku, Y, Ogawa, N, Oshima, Y, Hakoshima, T. | | Deposit date: | 1997-11-27 | | Release date: | 1998-03-18 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Crystal structure of PHO4 bHLH domain-DNA complex: flanking base recognition.
EMBO J., 16, 1997
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3MGH
 | | Binary complex of a DNA polymerase lambda loop mutant | | Descriptor: | DNA (5'-D(*CP*AP*GP*TP*AP*C)-3'), DNA (5'-D(*CP*GP*GP*CP*AP*GP*TP*AP*CP*TP*G)-3'), DNA (5'-D(P*GP*CP*CP*G)-3'), ... | | Authors: | Garcia-Diaz, M, Bebenek, K, Zhou, R.Z, Povirk, L.F, Kunkel, T. | | Deposit date: | 2010-04-06 | | Release date: | 2010-05-19 | | Last modified: | 2017-11-08 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Loop 1 modulates the fidelity of DNA polymerase lambda
Nucleic Acids Res., 38, 2010
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5LCL
 | | STRUCTURE OF the RAD14 DNA-binding domain IN COMPLEX WITH C8-aminofluorene- GUANINE CONTAINING DNA | | Descriptor: | DNA (5'-D(*GP*TP*GP*AP*TP*GP*AP*CP*GP*TP*AP*GP*AP*G)-3'), DNA repair protein RAD14, GCTCTAC(8AF)TCATCA, ... | | Authors: | Schneider, S, Carell, T, Ebert, C, Simon, N. | | Deposit date: | 2016-06-22 | | Release date: | 2017-05-10 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Structural Insights into the Recognition of N(2) -Aryl- and C8-Aryl DNA Lesions by the Repair Protein XPA/Rad14.
Chembiochem, 18, 2017
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5GWI
 | | Structure of a Human topoisomerase IIbeta fragment in complex with DNA and E7873R | | Descriptor: | DNA (5'-D(P*AP*GP*CP*CP*GP*AP*GP*C)-3'), DNA (5'-D(P*TP*GP*CP*AP*GP*CP*TP*CP*GP*GP*CP*T)-3'), DNA topoisomerase 2-beta, ... | | Authors: | Wang, Y.R, Chen, S.F, Wu, C.C, Chan, N.L. | | Deposit date: | 2016-09-12 | | Release date: | 2017-08-23 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.737 Å) | | Cite: | Producing irreversible topoisomerase II-mediated DNA breaks by site-specific Pt(II)-methionine coordination chemistry
Nucleic Acids Res., 45, 2017
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5LCM
 | | STRUCTURE OF the RAD14 DNA-binding domain IN COMPLEX WITH N2-acetylaminonaphtyl- GUANINE CONTAINING DNA | | Descriptor: | DNA (5'-D(*GP*CP*TP*CP*TP*AP*CP*(AAN)P*TP*CP*AP*TP*CP*A)-3'), DNA (5'-D(*GP*TP*GP*AP*TP*GP*AP*CP*GP*TP*AP*GP*AP*G)-3'), DNA repair protein RAD14, ... | | Authors: | Schneider, S, Ebert, C, Simon, N, Carell, T. | | Deposit date: | 2016-06-22 | | Release date: | 2017-05-10 | | Last modified: | 2024-05-08 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural Insights into the Recognition of N(2) -Aryl- and C8-Aryl DNA Lesions by the Repair Protein XPA/Rad14.
Chembiochem, 18, 2017
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4M6F
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2JXI
 | | Solution structure of the DNA-binding domain of Pseudomonas putida Proline utilization A (putA) bound to GTTGCA DNA sequence | | Descriptor: | DNA (5'-D(*DAP*DAP*DAP*DGP*DGP*DTP*DGP*DCP*DAP*DAP*DCP*DCP*DGP*DC)-3'), DNA (5'-D(*DGP*DCP*DGP*DGP*DTP*DTP*DGP*DCP*DAP*DCP*DCP*DTP*DTP*DT)-3'), Proline dehydrogenase | | Authors: | Halouska, S, Zhou, Y, Becker, D, Powers, R. | | Deposit date: | 2007-11-19 | | Release date: | 2008-10-21 | | Last modified: | 2024-05-01 | | Method: | SOLUTION NMR | | Cite: | Solution structure of the Pseudomonas putida protein PpPutA45 and its DNA complex
Proteins, 75, 2008
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4B08
 | | Yeast DNA polymerase alpha, Selenomethionine protein | | Descriptor: | DNA POLYMERASE ALPHA CATALYTIC SUBUNIT A | | Authors: | Perera, R.L, Torella, R, Klinge, S, Kilkenny, M.L, Maman, J.D, Pellegrini, L. | | Deposit date: | 2012-06-29 | | Release date: | 2013-02-27 | | Last modified: | 2013-05-01 | | Method: | X-RAY DIFFRACTION (2.67 Å) | | Cite: | Mechanism for Priming DNA Synthesis by Yeast DNA Polymerase Alpha
Elife, 2, 2013
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368D
 | | STRUCTURAL VARIABILITY OF A-DNA IN CRYSTALS OF THE OCTAMER D(PCPCPCPGPCPGPGPG) | | Descriptor: | DNA (5'-D(P*CP*CP*CP*GP*CP*GP*GP*G)-3') | | Authors: | Fernandez, L.G, Subirana, J.A, Verdaguer, N, Pyshnyi, D, Campos, L, Malinina, L. | | Deposit date: | 1997-12-19 | | Release date: | 1998-07-15 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structural variability of A-DNA in crystals of the octamer d(pCpCpCpGpCpGpGpG)
J.Biomol.Struct.Dyn., 15, 1997
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