1L3T
| Crystal Structure of Bacillus DNA Polymerase I Fragment product complex with 10 base pairs of duplex DNA following addition of a single dTTP residue | Descriptor: | 5'-D(*GP*AP*CP*G*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3', 5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3', DNA Polymerase I, ... | Authors: | Johnson, S.J, Taylor, J.S, Beese, L.S. | Deposit date: | 2002-03-01 | Release date: | 2003-03-25 | Last modified: | 2023-08-16 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Processive DNA synthesis observed in a polymerase crystal suggests a
mechanism for the prevention of frameshift mutations Proc.Natl.Acad.Sci.USA, 100, 2003
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3RRG
| Ternary Structure of the large fragment of Taq DNA polymerase bound to an abasic site and a ddGTP | Descriptor: | (5'-D(*AP*AP*AP*(3DR)P*CP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DDG))-3'), 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, ... | Authors: | Marx, A, Diederichs, K, Obeid, S. | Deposit date: | 2011-04-29 | Release date: | 2012-02-15 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Amino Acid templating mechanisms in selection of nucleotides opposite abasic sites by a family a DNA polymerase. J.Biol.Chem., 287, 2012
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3RRH
| Ternary Structure of the large fragment of Taq DNA polymerase bound to an abasic site and a ddTTP | Descriptor: | (5'-D(*AP*AP*AP*(3DR)P*AP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DT))-3'), ACETATE ION, ... | Authors: | Marx, A, Diederichs, K, Obeid, S. | Deposit date: | 2011-04-29 | Release date: | 2012-02-15 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Amino Acid templating mechanisms in selection of nucleotides opposite abasic sites by a family a DNA polymerase. J.Biol.Chem., 287, 2012
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2KFZ
| KLENOW FRAGMENT WITH BRIDGING-SULFUR SUBSTRATE AND ZINC ONLY | Descriptor: | 5'-D(*GP*CP*TP*TP*AP*(US1)P*G)-3', KLENOW FRAGMENT OF DNA POLYMERASE I, MAGNESIUM ION, ... | Authors: | Brautigam, C.A, Sun, S, Piccirilli, J.A, Steitz, T.A. | Deposit date: | 1998-07-02 | Release date: | 1998-11-11 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (2.03 Å) | Cite: | Structures of normal single-stranded DNA and deoxyribo-3'-S-phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli. Biochemistry, 38, 1999
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3RR7
| Binary Structure of the large fragment of Taq DNA polymerase bound to an abasic site | Descriptor: | (5'-D(*AP*AP*AP*(3DR)P*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3'), DNA polymerase I, ... | Authors: | Marx, A, Diederichs, K, Obeid, S. | Deposit date: | 2011-04-29 | Release date: | 2012-02-15 | Last modified: | 2023-09-13 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Amino Acid templating mechanisms in selection of nucleotides opposite abasic sites by a family a DNA polymerase. J.Biol.Chem., 287, 2012
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2KFN
| KLENOW FRAGMENT WITH BRIDGING-SULFUR SUBSTRATE AND MANGANESE | Descriptor: | 5'-D(*GP*CP*TP*TP*AP*(US1)P*G)-3', KLENOW FRAGMENT OF DNA POLYMERASE I, MAGNESIUM ION, ... | Authors: | Brautigam, C.A, Sun, S, Piccirilli, J.A, Steitz, T.A. | Deposit date: | 1998-07-01 | Release date: | 1998-11-11 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (2.03 Å) | Cite: | Structures of normal single-stranded DNA and deoxyribo-3'-S-phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli. Biochemistry, 38, 1999
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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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8SCL
| Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 6h | 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 (2.44 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCI
| Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 1h | 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 (2.67 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCG
| Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 0h (Ground State) | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 3'-Amino DNA Primer, CALCIUM ION, ... | 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 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCK
| Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 4h | 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 (2.3 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCM
| Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 8h | 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 (2.3 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCN
| Bst DNA polymerase I Large Fragment mutant F710Y/D598A with 3'-amino primer, dGTP, and calcium time-resolved 24h (Product State) | Descriptor: | CALCIUM ION, DIPHOSPHATE, DNA polymerase I, ... | 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 (2.3 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCO
| Bst DNA polymerase I Large Fragment wildtype D598A with 3'-amino primer, dGTP, and calcium time-resolved 0h (Ground State) | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 3'-Amino DNA primer, CALCIUM ION, ... | 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 (1.92 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCP
| Bst DNA polymerase I Large Fragment wildtype D598A with 3'-amino primer, dGTP, and calcium time-resolved 1h | 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 (2.08 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCQ
| Bst DNA polymerase I Large Fragment wildtype 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 (2.18 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCR
| Bst DNA polymerase I Large Fragment wildtype D598A with 3'-amino primer, dGTP, and calcium time-resolved 4h | 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 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCS
| Bst DNA polymerase I Large Fragment wildtype D598A with 3'-amino primer, dGTP, and calcium time-resolved 8h | 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 (2.1 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCT
| Bst DNA polymerase I Large Fragment wildtype D598A with 3'-amino primer, dGTP, and calcium time-resolved 24h | 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 (2.34 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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8SCU
| Bst DNA polymerase I Large Fragment wildtype D598A with 3'-amino primer, dGTP, and calcium time-resolved 48h (Product State) | 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 (2.38 Å) | Cite: | Trivalent rare earth metal cofactors confer rapid NP-DNA polymerase activity. Science, 382, 2023
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4B9N
| Structure of the high fidelity DNA polymerase I correctly bypassing the oxidative formamidopyrimidine-dA DNA lesion. | Descriptor: | 5'-D(*CP*AP*AP*(FAX)*AP*GP*AP*GP*TP*CP*AP*GP*GP*CP*TP)-3', 5'-D(*GP*CP*CP*TP*GP*AP*CP*TP*CP*TP*TP*TP*TP)-3', DNA POLYMERASE, ... | Authors: | Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. | Deposit date: | 2012-09-05 | Release date: | 2013-04-17 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
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4B9L
| Structure of the high fidelity DNA polymerase I with the oxidative formamidopyrimidine-dA DNA lesion in the pre-insertion site. | Descriptor: | 5'-D(*CP*AP*GP*FAX*AP*GP*AP*GP*TP*CP*AP*GP*GP*CP*TP)-3', 5'-D(*GP*CP*CP*TP*GP*AP*CP*TP*CP*TP)-3', DNA POLYMERASE I, ... | Authors: | Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. | Deposit date: | 2012-09-05 | Release date: | 2013-04-17 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.05 Å) | Cite: | Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
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4B9T
| Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dC basepair in the post-insertion site. | Descriptor: | 5'-D(*AP*CP*CP*TP*GP*AP*CP*TP*CP*TP)-3', 5'-D(*CP*AP*TP*FOXP*AP*GP*AP*GP*TP*CP*AP*GP*GP*TP*TP)-3', DNA POLYMERASE, ... | Authors: | Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. | Deposit date: | 2012-09-06 | Release date: | 2013-04-17 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.65 Å) | Cite: | Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
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4B9U
| Structure of the high fidelity DNA polymerase I with an oxidative formamidopyrimidine-dG DNA lesion -dA basepair in the post-insertion site. | Descriptor: | 5'-D(*CP*AP*AP*FOXP*CP*GP*AP*GP*TP*CP*AP*GP*GP*CP*TP)-3', 5'-D(*GP*CP*CP*TP*GP*AP*CP*TP*CP*GP*AP)-3', DNA POLYMERASE, ... | Authors: | Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. | Deposit date: | 2012-09-06 | Release date: | 2013-04-17 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
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4B9V
| Structure of the high fidelity DNA polymerase I with extending from an oxidative formamidopyrimidine-dG DNA lesion -dA basepair. | Descriptor: | 5'-D(*CP*AP*TP*FOXP*AP*GP*AP*GP*TP*CP*AP*GP*GP*CP*TP)-3', 5'-D(*CP*CP*TP*GP*AP*CP*TP*CP*TP*AP*AP)-3', DNA POLYMERASE, ... | Authors: | Gehrke, T.H, Lischke, U, Arnold, S, Schneider, S, Carell, T. | Deposit date: | 2012-09-06 | Release date: | 2013-04-17 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Unexpected Non-Hoogsteen-Based Mutagenicity Mechanism of Fapy-DNA Lesions. Nat.Chem.Biol., 9, 2013
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