6D8A
| RsAgo Ternary Complex with guide RNA and Target DNA Containing A-A Bulge Within the Seed Segment of the Target Strand | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, ACETATE ION, DNA (5'-D(P*TP*CP*GP*TP*CP*AP*CP*CP*TP*GP*TP*GP*CP*AP*GP*AP*AP*TP*AP*AP*C)-3'), ... | Authors: | Liu, Y, Esyunina, D, Olovnikov, I, Teplova, M, Patel, D.J. | Deposit date: | 2018-04-26 | Release date: | 2018-07-25 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.251 Å) | Cite: | Accommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA. Cell Rep, 24, 2018
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1XHZ
| Phi29 DNA polymerase, orthorhombic crystal form, ssDNA complex | Descriptor: | 5'-D(*TP*TP*TP*TP*T)-3', DNA polymerase | Authors: | Kamtekar, S, Berman, A.J, Wang, J, Lazaro, J.M, de Vega, M, Blanco, L, Salas, M, Steitz, T.A. | Deposit date: | 2004-09-21 | Release date: | 2004-12-07 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Insights into Strand Displacement and Processivity from the Crystal Structure of the Protein-Primed DNA Polymerase of Bacteriophage phi29 Mol.Cell, 16, 2004
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6DF5
| Kaiso (ZBTB33) zinc finger DNA binding domain in complex with the specific Kaiso binding sequence (KBS) | Descriptor: | CHLORIDE ION, DNA (5'-D(*CP*GP*TP*TP*AP*TP*TP*GP*GP*CP*AP*GP*GP*AP*AP*GP*CP*A)-3'), DNA (5'-D(*TP*GP*CP*TP*TP*CP*CP*TP*GP*CP*CP*AP*AP*TP*AP*AP*CP*G)-3'), ... | Authors: | Nikolova, E.N, Stanfield, R.L, Dyson, H.J, Wright, P.E. | Deposit date: | 2018-05-14 | Release date: | 2019-05-22 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.819 Å) | Cite: | A conformational switch in the zinc finger protein Kaiso mediates differential readout of specific and methylated DNA sequences. Biochemistry, 2020
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6DFB
| Kaiso (ZBTB33) K539A zinc finger DNA binding domain in complex with the specific Kaiso binding sequence (KBS) | Descriptor: | CHLORIDE ION, DNA (5'-D(*CP*GP*TP*TP*AP*TP*TP*GP*GP*CP*AP*GP*GP*AP*AP*GP*CP*A)-3'), DNA (5'-D(*TP*GP*CP*TP*TP*CP*CP*TP*GP*CP*CP*AP*AP*TP*AP*AP*CP*G)-3'), ... | Authors: | Nikolova, E.N, Stanfield, R.L, Dyson, H.J, Wright, P.E. | Deposit date: | 2018-05-14 | Release date: | 2019-05-22 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.66 Å) | Cite: | A conformational switch in the zinc finger protein Kaiso mediates differential readout of specific and methylated DNA sequences. Biochemistry, 2020
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6DFC
| Kaiso (ZBTB33) zinc finger DNA binding domain in complex with the specific Kaiso binding sequence (KBS) with a T-to-U substitution | Descriptor: | CHLORIDE ION, DNA (5'-D(*CP*GP*TP*TP*AP*TP*TP*GP*GP*CP*AP*AP*GP*AP*AP*GP*CP*A)-3'), DNA (5'-D(*TP*GP*CP*TP*TP*CP*UP*TP*GP*CP*CP*AP*AP*TP*AP*AP*CP*G)-3'), ... | Authors: | Nikolova, E.N, Stanfield, R.L, Dyson, H.J, Wright, P.E. | Deposit date: | 2018-05-14 | Release date: | 2019-05-22 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | A conformational switch in the zinc finger protein Kaiso mediates differential readout of specific and methylated DNA sequences. Biochemistry, 2020
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4LIM
| Crystal structure of the catalytic subunit of yeast primase | Descriptor: | DNA primase small subunit, ZINC ION | Authors: | Vaithiyalingam, S, Chazin, W.J, Berger, J.M, Corn, J, Stephenson, S. | Deposit date: | 2013-07-02 | Release date: | 2013-12-18 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.63 Å) | Cite: | Insights into Eukaryotic Primer Synthesis from Structures of the p48 Subunit of Human DNA Primase. J.Mol.Biol., 426, 2014
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5CA7
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1C8C
| CRYSTAL STRUCTURES OF THE CHROMOSOMAL PROTEINS SSO7D/SAC7D BOUND TO DNA CONTAINING T-G MISMATCHED BASE PAIRS | Descriptor: | 5'-D(*GP*TP*GP*AP*TP*CP*GP*C)-3', DNA-BINDING PROTEIN 7A | Authors: | Su, S, Gao, Y.-G, Robinson, H, Liaw, Y.-C, Edmondson, S.P, Shriver, J.W, Wang, A.H.-J. | Deposit date: | 2000-05-04 | Release date: | 2001-05-04 | Last modified: | 2023-08-09 | Method: | X-RAY DIFFRACTION (1.45 Å) | Cite: | Crystal structures of the chromosomal proteins Sso7d/Sac7d bound to DNA containing T-G mismatched base-pairs. J.Mol.Biol., 303, 2000
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5CR0
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2EWT
| Crystal structure of the DNA-binding domain of BldD | Descriptor: | SULFATE ION, putative DNA-binding protein | Authors: | Kim, I.K, Lee, C.J, Kim, M.K, Kim, J.M, Kim, J.H, Yim, H.S, Cha, S.S, Kang, S.O. | Deposit date: | 2005-11-07 | Release date: | 2006-06-13 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.81 Å) | Cite: | Crystal structure of the DNA-binding domain of BldD, a central regulator of aerial mycelium formation in Streptomyces coelicolor A3(2) Mol.Microbiol., 60, 2006
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3KSA
| Detailed structural insight into the DNA cleavage complex of type IIA topoisomerases (cleaved form) | Descriptor: | 5'-D(*AP*CP*CP*AP*AP*GP*GP*T*CP*AP*TP*GP*AP*AP*T)-3', 5'-D(*CP*TP*GP*TP*TP*TP*TP*A*CP*GP*TP*GP*CP*AP*T)-3', 5'-D(P*AP*GP*TP*CP*AP*TP*TP*CP*AP*TP*GP*AP*CP*CP*TP*TP*GP*GP*T)-3', ... | Authors: | Laponogov, I, Pan, X.-S, Veselkov, D.A, McAuley, K.E, Fisher, L.M, Sanderson, M.R. | Deposit date: | 2009-11-21 | Release date: | 2010-05-05 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Structural Basis of Gate-DNA Breakage and Resealing by Type II Topoisomerases Plos One, 5, 2010
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7V59
| Cryo-EM structure of spyCas9-sgRNA-DNA dimer | Descriptor: | CRISPR-associated endonuclease Cas9/Csn1, DNA (49-MER), RNA (115-MER) | Authors: | Liu, J, Deng, P. | Deposit date: | 2021-08-16 | Release date: | 2022-08-17 | Last modified: | 2024-06-12 | Method: | ELECTRON MICROSCOPY (5.26 Å) | Cite: | Nonspecific interactions between SpCas9 and dsDNA sites located downstream of the PAM mediate facilitated diffusion to accelerate target search. Chem Sci, 12, 2021
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3LTN
| Inhibitor-stabilized topoisomerase IV-DNA cleavage complex (S. pneumoniae) | Descriptor: | 3-amino-7-{(3R)-3-[(1S)-1-aminoethyl]pyrrolidin-1-yl}-1-cyclopropyl-6-fluoro-8-methylquinazoline-2,4(1H,3H)-dione, 5'-D(*AP*CP*CP*AP*AP*GP*GP*T*CP*AP*TP*GP*AP*AP*T)-3', 5'-D(*CP*TP*GP*TP*TP*TP*TP*A*CP*GP*TP*GP*CP*AP*T)-3', ... | Authors: | Laponogov, I, Pan, X.-S, Veselkov, D.A, McAuley, K.E, Fisher, L.M, Sanderson, M.R. | Deposit date: | 2010-02-16 | Release date: | 2010-05-05 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.1 Å) | Cite: | Structural Basis of Gate-DNA Breakage and Resealing by Type II Topoisomerases Plos One, 5, 2010
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2XGP
| Yeast DNA polymerase eta in complex with C8-2-acetylaminofluorene containing DNA | Descriptor: | 5'-D(*CP*8FG*CP*TP*CP*AP*TP*CP*CP*AP*C)-3', 5'-D(*GP*TP*GP*GP*AP*TP*GP*AP*G)-3', CALCIUM ION, ... | Authors: | Scheider, S, Lammens, K, Schorr, S, Hopfner, K.P, Carell, T. | Deposit date: | 2010-06-07 | Release date: | 2010-11-03 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Mechanism of Replication Blocking and Bypass of Y-Family Polymerase Eta by Bulky Acetylaminofluorene DNA Adducts. Proc.Natl.Acad.Sci.USA, 107, 2010
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3E0D
| Insights into the Replisome from the Crystral Structure of the Ternary Complex of the Eubacterial DNA Polymerase III alpha-subunit | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase III subunit alpha, ... | Authors: | Wing, R.A, Bailey, S, Steitz, T.A. | Deposit date: | 2008-07-31 | Release date: | 2008-09-23 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (4.6 Å) | Cite: | Insights into the Replisome from the Structure of a Ternary Complex of the DNA Polymerase III alpha-Subunit. J.Mol.Biol., 382, 2008
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5CWR
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5WVZ
| The crystal structure of Cren7 mutant L28F in complex with dsDNA | Descriptor: | Chromatin protein Cren7, DNA (5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3') | Authors: | Zhang, Z.F, Zhao, M.H, Wang, L, Chen, Y.Y, Dong, Y.H, Gong, Y, Huang, L. | Deposit date: | 2016-12-30 | Release date: | 2017-04-26 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Roles of Leu28 side chain intercalation in the interaction between Cren7 and DNA Biochem. J., 474, 2017
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3V72
| Crystal Structure of Rat DNA polymerase beta Mutator E295K: Enzyme-dsDNA | Descriptor: | CHLORIDE ION, DNA 5'-D(P*AP*AP*AP*CP*TP*CP*AP*CP*AP*T)-3', DNA 5'-D(P*AP*TP*GP*TP*GP*AP*GP*T)-3', ... | Authors: | Gridley, C.L, Jaeger, J. | Deposit date: | 2011-12-20 | Release date: | 2012-07-04 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.49 Å) | Cite: | Unfavorable Electrostatic and Steric Interactions in DNA Polymerase beta E295K Mutant Interfere with the Enzyme s Pathway J.Am.Chem.Soc., 134, 2012
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6BSG
| Structure of HIV-1 RT complexed with RNA/DNA hybrid in an RNA hydrolysis-off mode | Descriptor: | (-)-6-CHLORO-4-CYCLOPROPYLETHYNYL-4-TRIFLUOROMETHYL-1,4-DIHYDRO-2H-3,1-BENZOXAZIN-2-ONE, CALCIUM ION, DI(HYDROXYETHYL)ETHER, ... | Authors: | Tian, L, Kim, M, Yang, W. | Deposit date: | 2017-12-03 | Release date: | 2018-01-03 | Last modified: | 2024-05-22 | Method: | X-RAY DIFFRACTION (2.44 Å) | Cite: | Structure of HIV-1 reverse transcriptase cleaving RNA in an RNA/DNA hybrid. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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5WVY
| The crystal structure of Cren7 mutant L28V in complex with dsDNA | Descriptor: | Chromatin protein Cren7, DNA (5'-D(*GP*TP*GP*AP*TP*CP*AP*C)-3') | Authors: | Zhang, Z.F, Zhao, M.H, Wang, L, Chen, Y.Y, Dong, Y.H, Gong, Y, Huang, L. | Deposit date: | 2016-12-29 | Release date: | 2017-04-26 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Roles of Leu28 side chain intercalation in the interaction between Cren7 and DNA Biochem. J., 474, 2017
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3K9F
| Detailed structural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases | Descriptor: | (3S)-9-fluoro-3-methyl-10-(4-methylpiperazin-1-yl)-7-oxo-2,3-dihydro-7H-[1,4]oxazino[2,3,4-ij]quinoline-6-carboxylic acid, DNA (5'-D(*AP*CP*CP*AP*AP*GP*GP*T*CP*AP*TP*GP*AP*AP*T)-3'), DNA (5'-D(*CP*TP*GP*TP*TP*TP*TP*A*CP*GP*TP*GP*CP*AP*T)-3'), ... | Authors: | Laponogov, I, Pan, X.-S, Veselkov, D.A, Fisher, L.M, Sanderson, M.R. | Deposit date: | 2009-10-15 | Release date: | 2009-10-27 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structural Basis of Gate-DNA Breakage and Resealing by Type II Topoisomerases Plos One, 5, 2010
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6BSJ
| Structure of HIV-1 RT complexed with an RNA/DNA hybrid sequence non-preferred for RNA hydrolysis | Descriptor: | (-)-6-CHLORO-4-CYCLOPROPYLETHYNYL-4-TRIFLUOROMETHYL-1,4-DIHYDRO-2H-3,1-BENZOXAZIN-2-ONE, CALCIUM ION, DNA (5'-D(*GP*TP*AP*TP*GP*CP*CP*TP*AP*TP*AP*GP*TP*TP*AP*TP*TP*GP*TP*GP*GP*CP*C)-3'), ... | Authors: | Tian, L, Kim, M, Yang, W. | Deposit date: | 2017-12-03 | Release date: | 2018-01-03 | Last modified: | 2024-05-22 | Method: | X-RAY DIFFRACTION (2.89 Å) | Cite: | Structure of HIV-1 reverse transcriptase cleaving RNA in an RNA/DNA hybrid. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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2XGQ
| Structure of yeast DNA polymerase eta in complex with C8-N-acetyl-2- aminoanthracene containing DNA | Descriptor: | 5'-D(*CP*8AG*CP*TP*CP*AP*TP*CP*CP*AP*C)-3', 5'-D(*GP*TP*GP*GP*AP*TP*GP*AP*G)-3', CALCIUM ION, ... | Authors: | Schneider, S, Schorr, S, Carell, T. | Deposit date: | 2010-06-07 | Release date: | 2010-11-03 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Mechanism of Replication Blocking and Bypass of Y-Family Polymerase Eta by Bulky Acetylaminofluorene DNA Adducts. Proc.Natl.Acad.Sci.USA, 107, 2010
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6BSI
| Structure of HIV-1 RT complexed with an RNA/DNA hybrid containing the polypurine-tract sequence | Descriptor: | (-)-6-CHLORO-4-CYCLOPROPYLETHYNYL-4-TRIFLUOROMETHYL-1,4-DIHYDRO-2H-3,1-BENZOXAZIN-2-ONE, CALCIUM ION, DNA (5'-D(*GP*TP*TP*TP*TP*TP*CP*TP*TP*TP*TP*GP*TP*TP*AP*TP*TP*GP*TP*GP*GP*CP*C)-3'), ... | Authors: | Tian, L, Kim, M, Yang, W. | Deposit date: | 2017-12-03 | Release date: | 2018-01-03 | Last modified: | 2024-05-22 | Method: | X-RAY DIFFRACTION (3.25 Å) | Cite: | Structure of HIV-1 reverse transcriptase cleaving RNA in an RNA/DNA hybrid. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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5WVW
| The crystal structure of Cren7 mutant L28A in complex with dsDNA | Descriptor: | Chromatin protein Cren7, DNA (5'-D(*GP*TP*GP*AP*TP*CP*AP*C)-3') | Authors: | Zhang, Z.F, Zhao, M.H, Wang, L, Chen, Y.Y, Dong, Y.H, Gong, Y, Huang, L. | Deposit date: | 2016-12-29 | Release date: | 2017-04-26 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Roles of Leu28 side chain intercalation in the interaction between Cren7 and DNA Biochem. J., 474, 2017
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