6VDC
 
 | | POL domain of Pol1 from M. smegmatis | | Descriptor: | DNA polymerase I, MANGANESE (II) ION | | Authors: | Shuman, S, Goldgur, Y, Ghosh, S. | | Deposit date: | 2019-12-24 | | Release date: | 2020-02-12 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (2.402 Å) | | Cite: | Mycobacterial DNA polymerase I: activities and crystal structures of the POL domain as apoenzyme and in complex with a DNA primer-template and of the full-length FEN/EXO-POL enzyme.
Nucleic Acids Res., 48, 2020
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6VDE
 | | Full-length M. smegmatis Pol1 | | Descriptor: | DNA polymerase I, MANGANESE (II) ION | | Authors: | Shuman, S, Goldgur, Y, Ghosh, S. | | Deposit date: | 2019-12-24 | | Release date: | 2020-02-12 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (2.713 Å) | | Cite: | Mycobacterial DNA polymerase I: activities and crystal structures of the POL domain as apoenzyme and in complex with a DNA primer-template and of the full-length FEN/EXO-POL enzyme.
Nucleic Acids Res., 48, 2020
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6XBU
 | | polymerase domain of polymerase-theta | | Descriptor: | 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(P*GP*TP*CP*AP*TP*TP*G)-3'), DNA polymerase theta, ... | | Authors: | Chen, X, Pomerantz, R, Zhao, J. | | Deposit date: | 2020-06-07 | | Release date: | 2021-06-09 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (3.29 Å) | | Cite: | Pol theta reverse transcribes RNA and promotes RNA-templated DNA repair.
Sci Adv, 7, 2021
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7K5U
 | | Bst DNA polymerase I time-resolved structure, 48 hr post dATP and dCTP addition | | Descriptor: | DNA (5'-D(P*CP*GP*AP*TP*CP*AP*CP*GP*TP*AP*C)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), DNA polymerase I, ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7K5P
 | | Bst DNA polymerase I time-resolved structure, 4 min post dATP addition | | Descriptor: | DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.97 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7K5S
 | | Bst DNA polymerase I time-resolved structure, 4 hr post dATP and dCTP addition | | Descriptor: | DNA (5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*AP*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), DNA polymerase I, ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.67 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7K5O
 | | Bst DNA polymerase I time-resolved structure, 1 min post dATP addition | | Descriptor: | DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.16 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7K5R
 | | Bst DNA polymerase I time-resolved structure, 120 min post dATP addition | | Descriptor: | DNA (5'-D(P*GP*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7K5T
 | | Bst DNA polymerase I time-resolved structure, 25.5 hr post dATP and dCTP addition | | Descriptor: | 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(P*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*C)-3'), ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7K5Q
 | | Bst DNA polymerase I time-resolved structure, 8 min post dATP addition | | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(P*G*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ... | | Authors: | Chim, N, Meza, R.A, Trinh, A.M, Chaput, J.C. | | Deposit date: | 2020-09-17 | | Release date: | 2021-03-03 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Following replicative DNA synthesis by time-resolved X-ray crystallography.
Nat Commun, 12, 2021
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7OWF
 | | KlenTaq DNA polymerase in a ternary complex with primer/template and the fluorescent nucleotide analog BFdUTP | | Descriptor: | DNA polymerase I, thermostable, GLYCEROL, ... | | Authors: | Betz, K, Srivatsan, S.G. | | Deposit date: | 2021-06-18 | | Release date: | 2022-06-29 | | Method: | X-RAY DIFFRACTION (1.91 Å) | | Cite: | Microenvironment-Sensitive Fluorescent Nucleotide Probes from Benzofuran, Benzothiophene, and Selenophene as Substrates for DNA Polymerases.
J.Am.Chem.Soc., 144, 2022
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7PBK
 | | Vibriophage phiVC8 family A DNA polymerase (DpoZ), two conformations: thumb-exo open and thumb-exo closed | | Descriptor: | DNA polymerase I | | Authors: | Czernecki, D, Hu, H, Romoli, F, Delarue, M. | | Deposit date: | 2021-08-02 | | Release date: | 2021-11-17 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Structural dynamics and determinants of 2-aminoadenine specificity in DNA polymerase DpoZ of vibriophage phi VC8.
Nucleic Acids Res., 49, 2021
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7SXL
 | | Plasmodium falciparum apicoplast DNA polymerase (exo-minus) without affinity tag | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Nieto, N, Chheda, P, Kerns, R, Nelson, S, Honzatko, R. | | Deposit date: | 2021-11-23 | | Release date: | 2022-10-26 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Promising antimalarials targeting apicoplast DNA polymerase from Plasmodium falciparum.
Eur.J.Med.Chem., 243, 2022
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7SXQ
 | | Plasmodium falciparum apicoplast DNA polymerase (exo-minus) without affinity tag | | Descriptor: | 1,2-ETHANEDIOL, Apicoplast DNA polymerase, CHLORIDE ION, ... | | Authors: | Nieto, N, Chheda, P, Kerns, R, Nelson, S, Honzatko, R. | | Deposit date: | 2021-11-24 | | Release date: | 2022-10-19 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Promising antimalarials targeting apicoplast DNA polymerase from Plasmodium falciparum.
Eur.J.Med.Chem., 243, 2022
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7R0K
 | | Crystal structure of Polymerase I from phage G20c | | Descriptor: | DNA polymerase I | | Authors: | Welin, M, Svensson, A, Hakansson, M, Al-Karadaghi, S, Linares-Pasten, J.A, Jasilionis, A, Nordberg Karlsson, E, Ahlqvist, J. | | Deposit date: | 2022-02-02 | | Release date: | 2022-11-02 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.972 Å) | | Cite: | Crystal structure of DNA polymerase I from Thermus phage G20c.
Acta Crystallogr D Struct Biol, 78, 2022
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7ZUS
 | | Crystal structure of ternary complex of Pol theta polymerase domain | | Descriptor: | 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*GP*CP*GP*GP*CP*TP*GP*TP*CP*AP*TP*TP*(DDG))-3'), DNA (5'-D(P*TP*TP*CP*CP*AP*AP*TP*GP*AP*CP*AP*GP*CP*CP*GP*C)-3'), ... | | Authors: | Krajewski, W.W, Turnbull, A.P, Willis, S, Charles, M, Stockley, M, Heald, R.A. | | Deposit date: | 2022-05-13 | | Release date: | 2022-10-12 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.26 Å) | | Cite: | Discovery, Characterization, and Structure-Based Optimization of Small-Molecule In Vitro and In Vivo Probes for Human DNA Polymerase Theta.
J.Med.Chem., 65, 2022
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7ZX1
 | | Crystal structure of Pol theta polymerase domain in complex with compound 22 | | Descriptor: | (2~{S},3~{R})-1-[3-cyano-6-methyl-4-(trifluoromethyl)pyridin-2-yl]-~{N}-methyl-~{N}-(3-methylphenyl)-3-oxidanyl-pyrrolidine-2-carboxamide, 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*GP*CP*GP*GP*CP*TP*GP*TP*CP*AP*TP*TP*(DDG))-3'), ... | | Authors: | Krajewski, W.W, Turnbull, A.P, Willis, S, Charles, M, Stockley, M, Heald, R.A. | | Deposit date: | 2022-05-19 | | Release date: | 2022-10-12 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.829 Å) | | Cite: | Discovery, Characterization, and Structure-Based Optimization of Small-Molecule In Vitro and In Vivo Probes for Human DNA Polymerase Theta.
J.Med.Chem., 65, 2022
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7ZX0
 | | Crystal structure of Pol theta polymerase domain in complex with compound 5 | | Descriptor: | 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, 2-[5-bromanyl-3-cyano-6-methyl-4-(trifluoromethyl)pyridin-2-yl]oxy-~{N}-ethyl-~{N}-(3-methylphenyl)ethanamide, DNA (5'-D(*GP*CP*GP*GP*CP*TP*GP*TP*CP*AP*TP*TP*(DDG))-3'), ... | | Authors: | Krajewski, W.W, Turnbull, A.P, Willis, S, Charles, M, Stockley, M, Heald, R.A. | | Deposit date: | 2022-05-19 | | Release date: | 2022-10-12 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.99 Å) | | Cite: | Discovery, Characterization, and Structure-Based Optimization of Small-Molecule In Vitro and In Vivo Probes for Human DNA Polymerase Theta.
J.Med.Chem., 65, 2022
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8E23
 | | Human DNA polymerase theta in complex with allosteric inhibitor | | Descriptor: | 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*GP*TP*CP*CP*AP*AP*TP*GP*AP*CP*AP*GP*CP*CP*GP*C)-3'), DNA (5'-D(*GP*C*GP*GP*CP*TP*GP*TP*CP*AP*TP*TP*G)-3'), ... | | Authors: | Mader, P, Pau, V.P.T, Sicheri, F. | | Deposit date: | 2022-08-13 | | Release date: | 2022-09-28 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.59 Å) | | Cite: | Identification of RP-6685 , an Orally Bioavailable Compound that Inhibits the DNA Polymerase Activity of Pol theta.
J.Med.Chem., 65, 2022
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8E24
 | | Human DNA polymerase theta in complex with allosteric inhibitor | | Descriptor: | 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, 2-[2,4-bis(trifluoromethyl)phenyl]-N-phenyl-N-[3-(pyridazin-3-yl)prop-2-yn-1-yl]acetamide, DNA, ... | | Authors: | Mader, P, Pau, V.P.T, Sicheri, F. | | Deposit date: | 2022-08-13 | | Release date: | 2022-09-28 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (2.34 Å) | | Cite: | Identification of RP-6685 , an Orally Bioavailable Compound that Inhibits the DNA Polymerase Activity of Pol theta.
J.Med.Chem., 65, 2022
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8EF9
 | | Structure of Lates calcarifer DNA polymerase theta polymerase domain with long duplex DNA, complex Ia | | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*AP*GP*CP*AP*TP*CP*CP*GP*TP*AP*GP*(2DA))-3'), DNA (5'-D(*AP*GP*CP*TP*CP*TP*AP*CP*GP*GP*AP*TP*GP*C)-3'), ... | | Authors: | Li, C, Zhu, H, Sun, J, Gao, Y. | | Deposit date: | 2022-09-08 | | Release date: | 2022-12-14 | | Last modified: | 2023-02-01 | | Method: | ELECTRON MICROSCOPY (2.4 Å) | | Cite: | Structural basis of DNA polymerase theta mediated DNA end joining.
Nucleic Acids Res., 51, 2023
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8EFC
 | | Structure of Lates calcarifer DNA polymerase theta polymerase domain with long duplex DNA, complex Ia | | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*AP*CP*TP*GP*TP*GP*AP*GP*GP*CP*AP*TP*CP*CP*GP*TP*AP*GP*(2DA))-3'), DNA (5'-D(*AP*GP*CP*TP*CP*TP*AP*CP*GP*GP*AP*TP*GP*CP*CP*TP*CP*AP*CP*AP*G)-3'), ... | | Authors: | Li, C, Zhu, H, Sun, J, Gao, Y. | | Deposit date: | 2022-09-08 | | Release date: | 2022-12-14 | | Last modified: | 2023-02-01 | | Method: | ELECTRON MICROSCOPY (2.8 Å) | | Cite: | Structural basis of DNA polymerase theta mediated DNA end joining.
Nucleic Acids Res., 51, 2023
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8EFK
 | | Structure of Lates calcarifer DNA polymerase theta polymerase domain with hairpin DNA | | Descriptor: | 2',3'-dideoxyadenosine triphosphate, DNA (5'-D(P*TP*TP*TP*TP*GP*GP*CP*TP*TP*TP*TP*GP*CP*CP*(2DA))-3'), Lates calcarifer DNA polymerase theta, ... | | Authors: | Li, C, Zhu, H, Sun, J, Gao, Y. | | Deposit date: | 2022-09-08 | | Release date: | 2022-12-14 | | Last modified: | 2023-02-01 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Structural basis of DNA polymerase theta mediated DNA end joining.
Nucleic Acids Res., 51, 2023
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8OO6
 | | Pol I bound to extended and displaced DNA section - closed conformation | | Descriptor: | DNA polymerase I, Displaced primer, Extending Primer, ... | | Authors: | Botto, M, Borsellini, A, Lamers, M.H. | | Deposit date: | 2023-04-04 | | Release date: | 2023-08-09 | | Last modified: | 2023-11-01 | | Method: | ELECTRON MICROSCOPY (4.3 Å) | | Cite: | A four-point molecular handover during Okazaki maturation.
Nat.Struct.Mol.Biol., 30, 2023
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8SCJ
 | | Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 2h | | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DIPHOSPHATE, ... | | Authors: | Fang, Z, Lelyveld, V.S, Szostak, J.W. | | Deposit date: | 2023-04-05 | | Release date: | 2023-10-25 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.68 Å) | | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity.
Science, 382, 2023
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