8IT1
| Cryo-EM structure of Crt-SPARTA-gRNA-tDNA tetramer (NADase active form) | Descriptor: | DNA (45-mer), Piwi domain-containing protein, RNA (5'-R(P*UP*GP*AP*GP*GP*UP*AP*GP*UP*AP*GP*GP*UP*UP*GP*UP*AP*UP*AP*GP*U)-3'), ... | Authors: | Gao, X, Shang, K, Zhu, K, Wang, L, Mu, Z, Fu, X, Yu, X, Qin, B, Zhu, H, Ding, W, Cui, S. | Deposit date: | 2023-03-21 | Release date: | 2023-11-08 | Last modified: | 2024-02-07 | Method: | ELECTRON MICROSCOPY (3.41 Å) | Cite: | Nucleic-acid-triggered NADase activation of a short prokaryotic Argonaute. Nature, 625, 2024
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8IT0
| Cryo-EM structure of Crt-SPARTA-gRNA-tDNA dimer (conformation-2) | Descriptor: | DNA (45-mer), Piwi domain-containing protein, RNA (5'-R(P*UP*GP*AP*GP*GP*UP*AP*GP*UP*AP*GP*GP*UP*UP*GP*UP*AP*UP*AP*GP*U)-3'), ... | Authors: | Gao, X, Shang, K, Zhu, K, Wang, L, Mu, Z, Fu, X, Yu, X, Qin, B, Zhu, H, Ding, W, Cui, S. | Deposit date: | 2023-03-21 | Release date: | 2023-10-18 | Last modified: | 2024-02-07 | Method: | ELECTRON MICROSCOPY (3.5 Å) | Cite: | Nucleic-acid-triggered NADase activation of a short prokaryotic Argonaute. Nature, 625, 2024
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7MVS
| DNA gyrase complexed with uncleaved DNA and Compound 7 to 2.6A resolution | Descriptor: | (1S)-2-[(2r,5S)-5-{[(2,3-dihydro-1,4-benzodioxin-6-yl)methyl]amino}-1,3-dioxan-2-yl]-1-(3-fluoro-6-methoxyquinolin-4-yl)ethan-1-ol, CHLORIDE ION, DNA (5'-D(P*AP*GP*CP*CP*GP*TP*AP*GP*GP*GP*CP*CP*CP*TP*AP*CP*GP*GP*CP*T)-3'), ... | Authors: | Ratigan, S.C, McElroy, C.A. | Deposit date: | 2021-05-15 | Release date: | 2021-10-20 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.60137153 Å) | Cite: | Optimization of TopoIV Potency, ADMET Properties, and hERG Inhibition of 5-Amino-1,3-dioxane-Linked Novel Bacterial Topoisomerase Inhibitors: Identification of a Lead with In Vivo Efficacy against MRSA. J.Med.Chem., 64, 2021
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8QQI
| E.coli DNA gyrase in complex with 217 bp substrate DNA and LEI-800 | Descriptor: | DNA gyrase subunit A, DNA gyrase subunit B, MAGNESIUM ION, ... | Authors: | Ghilarov, D, Martin, N.I, van der Stelt, M. | Deposit date: | 2023-10-04 | Release date: | 2024-06-19 | Last modified: | 2024-09-18 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Discovery of isoquinoline sulfonamides as allosteric gyrase inhibitors with activity against fluoroquinolone-resistant bacteria. Nat.Chem., 16, 2024
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5YI3
| Structure of Lactococcus lactis ZitR, C30S mutant in complex with DNA | Descriptor: | DNA (5'-D(*TP*GP*TP*TP*AP*AP*CP*TP*AP*GP*TP*TP*AP*AP*CP*A)-3'), ZINC ION, Zinc transport transcriptional regulator | Authors: | Song, Y, Liu, H, Zhu, R, Yi, C, Chen, P. | Deposit date: | 2017-10-01 | Release date: | 2017-12-06 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Allosteric histidine switch for regulation of intracellular zinc(II) fluctuation. Proc.Natl.Acad.Sci.USA, 114, 2017
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7X7P
| CryoEM structure of dsDNA-RuvB-RuvA domain3 complex | Descriptor: | DNA, Holliday junction ATP-dependent DNA helicase RuvA, Holliday junction ATP-dependent DNA helicase RuvB | Authors: | Lin, Z, Qu, Q, Zhang, X, Zhou, Z. | Deposit date: | 2022-03-10 | Release date: | 2023-03-15 | Last modified: | 2023-09-20 | Method: | ELECTRON MICROSCOPY (7.02 Å) | Cite: | Cryo-EM structure of the RuvAB-Holliday junction intermediate complex from Pseudomonas aeruginosa. Front Plant Sci, 14, 2023
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6Z01
| DNA Topoisomerase | Descriptor: | CHLORIDE ION, DNA topoisomerase I | Authors: | Takahashi, T.S, Gadelle, D, Forterre, P, Mayer, C, Petrella, S. | Deposit date: | 2020-05-07 | Release date: | 2021-11-17 | Last modified: | 2023-05-31 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Topoisomerase I (TOP1) dynamics: conformational transition from open to closed states. Nat Commun, 13, 2022
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8R0S
| Structure of reverse transcriptase from Cauliflower Mosaic Virus in complex with RNA/DNA hybrid | Descriptor: | DNA (5'-D(*GP*CP*TP*AP*CP*GP*CP*AP*CP*TP*GP*CP*TP*GP*GP*A)-3'), Enzymatic polyprotein, RNA (5'-R(*GP*UP*CP*CP*AP*GP*CP*AP*GP*UP*GP*CP*GP*UP*AP*GP*C)-3') | Authors: | Prabaharan, C, Figiel, M, Chamera, S, Szczepanowski, R, Nowak, E, Nowotny, M. | Deposit date: | 2023-10-31 | Release date: | 2024-07-24 | Last modified: | 2024-08-21 | Method: | X-RAY DIFFRACTION (2.35 Å) | Cite: | Structural and biochemical characterization of cauliflower mosaic virus reverse transcriptase. J.Biol.Chem., 300, 2024
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8DVP
| Glycosylase MutY variant N146S in complex with DNA containing d(8-oxo-G) paired with substrate purine | Descriptor: | ACETATE ION, Adenine DNA glycosylase, CALCIUM ION, ... | Authors: | Demir, M, Russelburg, L.P, Horvath, M.P, David, S.S. | Deposit date: | 2022-07-29 | Release date: | 2022-11-30 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.54 Å) | Cite: | Structural snapshots of base excision by the cancer-associated variant MutY N146S reveal a retaining mechanism. Nucleic Acids Res., 51, 2023
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8DW0
| Glycosylase MutY variant N146S in complex with DNA containing d(8-oxo-G) paired with an enzyme-generated abasic site (AP) product and crystallized with sodium acetate | Descriptor: | 1,2-ETHANEDIOL, Adenine DNA glycosylase, DNA (5'-D(*AP*AP*GP*AP*CP*(8OG)P*TP*GP*GP*AP*C)-3'), ... | Authors: | Demir, M, Russelburg, L.P, Horvath, M.P, David, S.S. | Deposit date: | 2022-07-30 | Release date: | 2022-11-30 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.68 Å) | Cite: | Structural snapshots of base excision by the cancer-associated variant MutY N146S reveal a retaining mechanism. Nucleic Acids Res., 51, 2023
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8DW4
| Glycosylase MutY variant N146S in complex with DNA containing d(8-oxo-G) paired with an abasic site product (AP) generated by the enzyme in crystals by removal of calcium | Descriptor: | ACETATE ION, Adenine DNA glycosylase, DNA (5'-D(*AP*AP*GP*AP*CP*(8OG)P*TP*GP*GP*AP*C)-3'), ... | Authors: | Demir, M, Russelburg, L.P, Horvath, M.P, David, S.S. | Deposit date: | 2022-07-31 | Release date: | 2022-11-30 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.49 Å) | Cite: | Structural snapshots of base excision by the cancer-associated variant MutY N146S reveal a retaining mechanism. Nucleic Acids Res., 51, 2023
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2PIE
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2E1C
| Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex | Descriptor: | DNA (5'-D(*DAP*DGP*DTP*DGP*DAP*DAP*DAP*DAP*DTP*DTP*DTP*DTP*DTP*DCP*DAP*DCP*DA)-3'), DNA (5'-D(*DTP*DGP*DTP*DGP*DAP*DAP*DAP*DAP*DAP*DTP*DTP*DTP*DTP*DCP*DAP*DCP*DT)-3'), Putative HTH-type transcriptional regulator PH1519 | Authors: | Koike, H, Suzuki, M. | Deposit date: | 2006-10-24 | Release date: | 2007-12-04 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Feast/Famine Regulation by Transcription Factor FL11 for the Survival of the Hyperthermophilic Archaeon Pyrococcus OT3. Structure, 15, 2007
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6UJX
| HIV-1 wild-type reverse transcriptase-DNA complex with (-)-FTC-TP | Descriptor: | DNA primer, DNA template, MAGNESIUM ION, ... | Authors: | Lansdon, E.B. | Deposit date: | 2019-10-03 | Release date: | 2019-12-25 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.70451212 Å) | Cite: | Elucidating molecular interactions ofL-nucleotides with HIV-1 reverse transcriptase and mechanism of M184V-caused drug resistance. Commun Biol, 2, 2019
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4WLW
| CRYSTAL STRUCTURE OF THE AG(I) (ACTIVATOR) FORM OF E. COLI CUER, A COPPER EFFLUX REGULATOR, BOUND TO COPA PROMOTER DNA | Descriptor: | DNA NON-TEMPLATE STRAND (5-D(*DGP*DAP*DCP*DCP *DTP*DTP*DCP*DCP*DCP*DCP*DTP*DTP*DGP*DCP*DTP*DGP*DGP*DAP *DAP*DGP*DGP*DTP*DC)-3, DNA TEMPLATE STRAND (5-D(*DGP*DAP*DCP*DCP*DTP *DTP*DCP*DCP*DAP*DGP*DCP*DAP*DAP*DGP*DGP*DGP*DGP*DAP*DAP *DGP*DGP*DTP*DC)-3, HTH-type transcriptional regulator CueR, ... | Authors: | Philips, S.J, Canalizo-Hernandez, M, Mondragon, A, O'Halloran, T.V. | Deposit date: | 2014-10-08 | Release date: | 2015-09-02 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | TRANSCRIPTION. Allosteric transcriptional regulation via changes in the overall topology of the core promoter. Science, 349, 2015
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8J7S
| Structure of the SPARTA complex | Descriptor: | DNA (5'-D(P*TP*AP*AP*TP*AP*GP*AP*TP*TP*AP*GP*AP*GP*CP*CP*GP*TP*CP*AP*AP*TP*AP*GP*A)-3'), Piwi domain-containing protein, RNA (5'-R(P*UP*GP*AP*CP*GP*GP*CP*UP*CP*UP*AP*AP*UP*CP*UP*AP*UP*UP*A)-3'), ... | Authors: | Guo, M, Zhu, Y, Lin, Z, Huang, Z. | Deposit date: | 2023-04-28 | Release date: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (2.84 Å) | Cite: | Cryo-EM structure of the ssDNA-activated SPARTA complex. Cell Res., 33, 2023
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7PP4
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9BPA
| Human DNA polymerase theta helicase domain in complex with inhibitor AB25583, tetramer form | Descriptor: | (4P)-N-{5-[(4-chlorophenyl)methoxy]-1,3,4-thiadiazol-2-yl}-4-(2-methoxyphenyl)pyridine-3-carboxamide, DNA polymerase theta | Authors: | Ito, F, Li, Z, Chen, X.S. | Deposit date: | 2024-05-07 | Release date: | 2024-08-28 | Method: | ELECTRON MICROSCOPY (3.21 Å) | Cite: | Structural basis for a Pol theta helicase small-molecule inhibitor revealed by cryo-EM. Nat Commun, 15, 2024
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9BP9
| Human DNA polymerase theta helicase domain in complex with inhibitor AB25583, dimer form | Descriptor: | (4P)-N-{5-[(4-chlorophenyl)methoxy]-1,3,4-thiadiazol-2-yl}-4-(2-methoxyphenyl)pyridine-3-carboxamide, DNA polymerase theta | Authors: | Ito, F, Li, Z, Chen, X.S. | Deposit date: | 2024-05-07 | Release date: | 2024-08-28 | Method: | ELECTRON MICROSCOPY (3.21 Å) | Cite: | Structural basis for a Pol theta helicase small-molecule inhibitor revealed by cryo-EM. Nat Commun, 15, 2024
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8F1J
| SigN RNA polymerase early-melted intermediate bound to mismatch DNA fragment dhsU36mm2 (-12A) | Descriptor: | DNA (36-MER), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | Authors: | Mueller, A.U, Chen, J, Darst, S.A. | Deposit date: | 2022-11-05 | Release date: | 2023-04-05 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (2.6 Å) | Cite: | A general mechanism for transcription bubble nucleation in bacteria. Proc.Natl.Acad.Sci.USA, 120, 2023
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8F1K
| SigN RNA polymerase early-melted intermediate bound to full duplex DNA fragment dhsU36 (-12T) | Descriptor: | DNA (36-MER), DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | Authors: | Mueller, A.U, Chen, J, Darst, S.A. | Deposit date: | 2022-11-05 | Release date: | 2023-04-05 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (2.8 Å) | Cite: | A general mechanism for transcription bubble nucleation in bacteria. Proc.Natl.Acad.Sci.USA, 120, 2023
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6EN8
| SaFadR in complex with dsDNA | Descriptor: | DNA (5'-D(*CP*TP*AP*CP*TP*TP*GP*AP*TP*TP*TP*TP*TP*GP*AP*GP*TP*CP*GP*AP*C)-3'), DNA (5'-D(*GP*TP*CP*GP*AP*CP*TP*CP*AP*AP*AP*AP*AP*TP*CP*AP*AP*GP*TP*AP*G)-3'), Transcriptional regulator TetR family, ... | Authors: | Valegard, K. | Deposit date: | 2017-10-04 | Release date: | 2018-10-31 | Last modified: | 2024-01-17 | Method: | X-RAY DIFFRACTION (3.29 Å) | Cite: | A TetR-family transcription factor regulates fatty acid metabolism in the archaeal model organism Sulfolobus acidocaldarius. Nat Commun, 10, 2019
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7NVT
| RNA polymerase II core pre-initiation complex with closed promoter DNA in distal position | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Aibara, S, Schilbach, S, Cramer, P. | Deposit date: | 2021-03-16 | Release date: | 2021-05-05 | Last modified: | 2024-07-10 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes. Nature, 594, 2021
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7NVU
| RNA polymerase II core pre-initiation complex with open promoter DNA | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Aibara, S, Schilbach, S, Cramer, P. | Deposit date: | 2021-03-16 | Release date: | 2021-05-05 | Last modified: | 2024-07-10 | Method: | ELECTRON MICROSCOPY (2.5 Å) | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes. Nature, 594, 2021
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7NVS
| RNA polymerase II core pre-initiation complex with closed promoter DNA in proximal position | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB3, ... | Authors: | Aibara, S, Schilbach, S, Cramer, P. | Deposit date: | 2021-03-16 | Release date: | 2021-05-05 | Last modified: | 2024-07-10 | Method: | ELECTRON MICROSCOPY (2.8 Å) | Cite: | Structures of mammalian RNA polymerase II pre-initiation complexes. Nature, 594, 2021
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