8TLF
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![BU of 8tlf by Molmil](/molmil-images/mine/8tlf) | CDCA7 (Mouse) Binds Non-B-form DNA oligo 36-mer (sg C2-Form 2) | Descriptor: | 1,2-ETHANEDIOL, Cell division cycle-associated protein 7, GLYCEROL, ... | Authors: | Horton, J.R, Ren, R, Cheng, X. | Deposit date: | 2023-07-26 | Release date: | 2024-08-21 | Last modified: | 2024-08-28 | Method: | X-RAY DIFFRACTION (1.64 Å) | Cite: | The ICF syndrome protein CDCA7 harbors a unique DNA-binding domain that recognizes a CpG dyad in the context of a non-B DNA. Biorxiv, 2023
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3U61
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![BU of 3u61 by Molmil](/molmil-images/mine/3u61) | Structure of T4 Bacteriophage Clamp Loader Bound To Closed Clamp, DNA and ATP Analog and ADP | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA polymerase accessory protein 44, DNA polymerase accessory protein 62, ... | Authors: | Kelch, B.A, Makino, D.L, O'Donnell, M, Kuriyan, J. | Deposit date: | 2011-10-11 | Release date: | 2012-01-04 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | How a DNA polymerase clamp loader opens a sliding clamp. Science, 334, 2011
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3RJF
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![BU of 3rjf by Molmil](/molmil-images/mine/3rjf) | Ternary complex of DNA Polymerase Beta with a gapped DNA containing (syn)8odG at template position paired with non-hydrolyzable dATP analog (dApCPP) | Descriptor: | 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*(8OG)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... | Authors: | Batra, V.K, Beard, W.A, Wilson, S.H. | Deposit date: | 2011-04-15 | Release date: | 2012-01-18 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Binary complex crystal structure of DNA polymerase beta reveals multiple conformations of the templating 8-oxoguanine lesion Proc.Natl.Acad.Sci.USA, 109, 2012
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1M1A
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![BU of 1m1a by Molmil](/molmil-images/mine/1m1a) | LIGAND BINDING ALTERS THE STRUCTURE AND DYNAMICS OF NUCLEOSOMAL DNA | Descriptor: | 3-AMINO-(DIMETHYLPROPYLAMINE), 4-AMINO-(1-METHYLIMIDAZOLE)-2-CARBOXYLIC ACID, 4-AMINO-(1-METHYLPYRROLE)-2-CARBOXYLIC ACID, ... | Authors: | Suto, R.K, Edayathumangalam, R.S, White, C.L, Melander, C, Gottesfeld, J.M, Dervan, P.B, Luger, K. | Deposit date: | 2002-06-18 | Release date: | 2003-02-18 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.65 Å) | Cite: | Crystal Structures of Nucleosome Core Particles in Complex with Minor Groove DNA-binding Ligands J.MOL.BIOL., 326, 2003
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3U60
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![BU of 3u60 by Molmil](/molmil-images/mine/3u60) | Structure of T4 Bacteriophage Clamp Loader Bound To Open Clamp, DNA and ATP Analog | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA polymerase accessory protein 44, DNA polymerase accessory protein 62, ... | Authors: | Kelch, B.A, Makino, D.L, O'Donnell, M, Kuriyan, J. | Deposit date: | 2011-10-11 | Release date: | 2012-01-04 | Method: | X-RAY DIFFRACTION (3.34 Å) | Cite: | How a DNA polymerase clamp loader opens a sliding clamp. Science, 334, 2011
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4K8X
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![BU of 4k8x by Molmil](/molmil-images/mine/4k8x) | Binary complex of 9N DNA polymerase in the replicative state | Descriptor: | 1,2-ETHANEDIOL, 1-(3-hydroxypropyl)-2-{(1E,3E,5E)-5-[1-(3-hydroxypropyl)-3,3-dimethyl-1,3-dihydro-2H-indol-2-ylidene]penta-1,3-dien-1-y l}-3,3-dimethyl-3H-indolium, CHLORIDE ION, ... | Authors: | Betz, K, Diederichs, K, Marx, A. | Deposit date: | 2013-04-19 | Release date: | 2013-06-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.28 Å) | Cite: | Structures of KOD and 9N DNA Polymerases Complexed with Primer Template Duplex Chembiochem, 14, 2013
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4DQQ
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![BU of 4dqq by Molmil](/molmil-images/mine/4dqq) | Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mg2+ | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CYTIDINE-5'-TRIPHOSPHATE, ... | Authors: | Wang, W, Beese, L.S. | Deposit date: | 2012-02-16 | Release date: | 2012-06-06 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.595 Å) | Cite: | Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. J.Biol.Chem., 287, 2012
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4DQS
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![BU of 4dqs by Molmil](/molmil-images/mine/4dqs) | Binary complex of Bacillus DNA Polymerase I Large Fragment and duplex DNA with rC in primer terminus paired with dG of template | Descriptor: | CYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*GP*A*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase, ... | Authors: | Wang, W, Beese, L.S. | Deposit date: | 2012-02-16 | Release date: | 2012-06-06 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.66 Å) | Cite: | Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. J.Biol.Chem., 287, 2012
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3RJH
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![BU of 3rjh by Molmil](/molmil-images/mine/3rjh) | Ternary complex of DNA Polymerase Beta with a gapped DNA containing (syn)8odG:dA at primer terminus and dG:dCMP(CF2)PPin the active site | Descriptor: | 2'-deoxy-5'-O-[(S)-{difluoro[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}(hydroxy)phosphoryl]cytidine, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*(8OG)P*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... | Authors: | Batra, V.K, Beard, W.A, Wilson, S.H. | Deposit date: | 2011-04-15 | Release date: | 2012-01-18 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Binary complex crystal structure of DNA polymerase beta reveals multiple conformations of the templating 8-oxoguanine lesion Proc.Natl.Acad.Sci.USA, 109, 2012
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3RJI
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![BU of 3rji by Molmil](/molmil-images/mine/3rji) | Ternary complex of DNA Polymerase Beta with a gapped DNA containing 8odG at template position paired with non-hydrolyzable dCTP analog (dCMP(CF2)PP) | Descriptor: | 2'-deoxy-5'-O-[(S)-{difluoro[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}(hydroxy)phosphoryl]cytidine, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*(8OG)P*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... | Authors: | Batra, V.K, Beard, W.A, Wilson, S.H. | Deposit date: | 2011-04-15 | Release date: | 2012-01-18 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Binary complex crystal structure of DNA polymerase beta reveals multiple conformations of the templating 8-oxoguanine lesion Proc.Natl.Acad.Sci.USA, 109, 2012
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4DQR
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![BU of 4dqr by Molmil](/molmil-images/mine/4dqr) | Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mn2+ | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, CYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*GP*GP*GP*AP*GP*TP*CP*AP*GP*G)-3'), ... | Authors: | Wang, W, Beese, L.S. | Deposit date: | 2012-02-16 | Release date: | 2012-06-06 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. J.Biol.Chem., 287, 2012
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4IZZ
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![BU of 4izz by Molmil](/molmil-images/mine/4izz) | Crystal Structure of Fischerella Transcription Factor HetR complexed with 21mer DNA target | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*GP*TP*GP*AP*GP*GP*GP*GP*TP*TP*AP*AP*AP*CP*CP*CP*CP*TP*CP*AP*C)-3'), SULFATE ION, ... | Authors: | Kim, Y, Joachimiak, G, Gornicki, P, Joachimiak, A, MCSG, Midwest Center for Structural Genomics (MCSG) | Deposit date: | 2013-01-30 | Release date: | 2013-03-27 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (2.502 Å) | Cite: | Structures of complexes comprised of Fischerella transcription factor HetR with Anabaena DNA targets. Proc.Natl.Acad.Sci.USA, 110, 2013
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4EZ9
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![BU of 4ez9 by Molmil](/molmil-images/mine/4ez9) | Bacillus DNA Polymerase I Large Fragment Complex 2 | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*GP*AP*GP*TP*CP*AP*GP*G)-3'), ... | Authors: | Wang, W, Beese, L.S. | Deposit date: | 2012-05-02 | Release date: | 2013-07-24 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.64 Å) | Cite: | Structures of a High-fidelity DNA Polymerase to be published
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4J2E
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![BU of 4j2e by Molmil](/molmil-images/mine/4j2e) | RB69 DNA Polymerase L415M Ternary Complex | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*G)-3'), ... | Authors: | Xia, S, Wang, J, Konigsberg, W.H. | Deposit date: | 2013-02-04 | Release date: | 2014-02-19 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.02 Å) | Cite: | Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics. Nucleic Acids Res., 41, 2013
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4J2A
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![BU of 4j2a by Molmil](/molmil-images/mine/4j2a) | RB69 DNA Polymerase L415A Ternary Complex | Descriptor: | CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*C)-3'), DNA (5'-D(*TP*CP*GP*AP*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3'), ... | Authors: | Xia, S, Wang, J, Konigsberg, W.H. | Deposit date: | 2013-02-04 | Release date: | 2014-02-19 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics. Nucleic Acids Res., 41, 2013
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1N48
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![BU of 1n48 by Molmil](/molmil-images/mine/1n48) | Y-family DNA polymerase Dpo4 in complex with DNA containing abasic lesion | Descriptor: | 5'-D(*CP*AP*(3DR)P*TP*AP*GP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3', 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*CP*TP*A)-3', ADENOSINE-5'-TRIPHOSPHATE, ... | Authors: | Ling, H, Boudsocq, F, Woodgate, R, Yang, W. | Deposit date: | 2002-10-30 | Release date: | 2004-02-24 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | A Y-family polymerase complexed with abasic lesions: catching DNA with a loaded nucleoside triphosphate To be Published
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4DOC
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![BU of 4doc by Molmil](/molmil-images/mine/4doc) | Ternary complex of dna polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-monochlororomethylene triphosphate:binding of S-isomer | Descriptor: | 5'-O-[(R)-{[(S)-[(S)-chloro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxyguanosine, C C G A C C G C G C A T C A G C, CHLORIDE ION, ... | Authors: | Batra, V.K. | Deposit date: | 2012-02-09 | Release date: | 2012-06-13 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.949 Å) | Cite: | Beta,gamma-CHF- and beta,gamma-CHCl-dGTP Diastereomers: Synthesis, Discrete (31)P NMR Signatures, and Absolute Configurations of New Stereochemical Probes for DNA Polymerases J.Am.Chem.Soc., 134, 2012
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5NNH
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![BU of 5nnh by Molmil](/molmil-images/mine/5nnh) | KSHV uracil-DNA glycosylase, apo form | Descriptor: | SULFATE ION, Uracil-DNA glycosylase | Authors: | Earl, C, Bagneris, C, Cole, A.R, Barrett, T, Savva, R. | Deposit date: | 2017-04-09 | Release date: | 2018-03-21 | Last modified: | 2024-01-17 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | A structurally conserved motif in gamma-herpesvirus uracil-DNA glycosylases elicits duplex nucleotide-flipping. Nucleic Acids Res., 46, 2018
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4J2B
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![BU of 4j2b by Molmil](/molmil-images/mine/4j2b) | RB69 DNA Polymerase L415G Ternary Complex | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*T)-3'), ... | Authors: | Xia, S, Wang, J, Konigsberg, W.H. | Deposit date: | 2013-02-04 | Release date: | 2014-02-19 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.04 Å) | Cite: | Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics. Nucleic Acids Res., 41, 2013
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4DO9
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![BU of 4do9 by Molmil](/molmil-images/mine/4do9) | Ternary complex of dna polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-monofluoromethylene triphosphate: stereoselective binding of r-isomer | Descriptor: | 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, C C G A C C G C G C A T C A G C, CHLORIDE ION, ... | Authors: | Batra, V.K. | Deposit date: | 2012-02-09 | Release date: | 2012-06-13 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Beta,gamma-CHF- and beta,gamma-CHCl-dGTP Diastereomers: Synthesis, Discrete (31)P NMR Signatures, and Absolute Configurations of New Stereochemical Probes for DNA Polymerases J.Am.Chem.Soc., 134, 2012
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4EZ6
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![BU of 4ez6 by Molmil](/molmil-images/mine/4ez6) | Bacillus DNA Polymerase I Large Fragment Complex 1 | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*GP*CP*GP*AP*GP*TP*CP*AP*GP*G)-3'), ... | Authors: | Wang, W, Beese, L.S. | Deposit date: | 2012-05-02 | Release date: | 2013-07-24 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.64 Å) | Cite: | Structures of a High-fidelity DNA Polymerase to be published
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7RFK
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![BU of 7rfk by Molmil](/molmil-images/mine/7rfk) | CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor Sinefungin | Descriptor: | 1,2-ETHANEDIOL, DNA Strand 1, DNA Strand 2, ... | Authors: | Horton, J.R, Cheng, X, Zhou, J. | Deposit date: | 2021-07-14 | Release date: | 2021-09-15 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Repurposing epigenetic inhibitors to target the Clostridioides difficile- specific DNA adenine methyltransferase and sporulation regulator CamA. Epigenetics, 17, 2022
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7RFM
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![BU of 7rfm by Molmil](/molmil-images/mine/7rfm) | CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor EPZ004777 | Descriptor: | 1,2-ETHANEDIOL, 7-{5-[(3-{[(4-tert-butylphenyl)carbamoyl]amino}propyl)(propan-2-yl)amino]-5-deoxy-beta-D-ribofuranosyl}-7H-pyrrolo[2,3-d]pyrimidin-4-amine, DNA Strand 1, ... | Authors: | Horton, J.R, Cheng, X, Zhou, J. | Deposit date: | 2021-07-14 | Release date: | 2021-09-15 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.68 Å) | Cite: | Repurposing epigenetic inhibitors to target the Clostridioides difficile- specific DNA adenine methyltransferase and sporulation regulator CamA. Epigenetics, 17, 2022
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7RFL
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![BU of 7rfl by Molmil](/molmil-images/mine/7rfl) | CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor SGC0946 | Descriptor: | 1,2-ETHANEDIOL, 5-bromo-7-{5-[(3-{[(4-tert-butylphenyl)carbamoyl]amino}propyl)(propan-2-yl)amino]-5-deoxy-beta-D-ribofuranosyl}-7H-pyrrolo[2,3-d]pyrimidin-4-amine, DNA Strand 1, ... | Authors: | Horton, J.R, Cheng, X, Zhou, J. | Deposit date: | 2021-07-14 | Release date: | 2021-09-15 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.38 Å) | Cite: | Repurposing epigenetic inhibitors to target the Clostridioides difficile- specific DNA adenine methyltransferase and sporulation regulator CamA. Epigenetics, 17, 2022
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7RFN
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![BU of 7rfn by Molmil](/molmil-images/mine/7rfn) | CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor SGC8158 | Descriptor: | 1,2-ETHANEDIOL, 5'-S-(4-{[(4'-chloro[1,1'-biphenyl]-3-yl)methyl]amino}butyl)-5'-thioadenosine, DNA Strand 1, ... | Authors: | Horton, J.R, Cheng, X, Zhou, J. | Deposit date: | 2021-07-14 | Release date: | 2021-09-15 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Repurposing epigenetic inhibitors to target the Clostridioides difficile- specific DNA adenine methyltransferase and sporulation regulator CamA. Epigenetics, 17, 2022
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