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4XVL
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BU of 4xvl by Molmil
Binary complex of human polymerase nu and DNA with the finger domain open
Descriptor: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, DNA (5'-D(*GP*AP*TP*CP*TP*GP*AP*CP*GP*CP*TP*AP*CP*G)-3'), DNA (5'-D(*TP*CP*GP*TP*AP*GP*CP*GP*TP*CP*A)-3'), ...
Authors:Lee, Y.-S, Yang, W.
Deposit date:2015-01-27
Release date:2015-03-11
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (3.301 Å)
Cite:How a homolog of high-fidelity replicases conducts mutagenic DNA synthesis.
Nat.Struct.Mol.Biol., 22, 2015
3LWM
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BU of 3lwm by Molmil
Structure of the large fragment of thermus aquaticus DNA polymerase I in complex with a blunt-ended DNA and ddATP
Descriptor: 2',3'-dideoxyadenosine triphosphate, ACETATE ION, DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3'), ...
Authors:Marx, A, Diederichs, K, Obeid, S.
Deposit date:2010-02-24
Release date:2010-05-05
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.186 Å)
Cite:Replication through an abasic DNA lesion: structural basis for adenine selectivity
Embo J., 29, 2010
6DSW
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BU of 6dsw by Molmil
Bst DNA polymerase I pre-chemistry (n) structure
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*G)-3'), DNA (5'-D(P*AP*CP*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ...
Authors:Chim, N, Jackson, L.N, Chaput, J.C.
Deposit date:2018-06-14
Release date:2018-10-31
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.589 Å)
Cite:Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.
Elife, 7, 2018
6DSY
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BU of 6dsy by Molmil
Bst DNA polymerase I post-chemistry (n+1) structure
Descriptor: DNA (5'-D(*GP*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'), DNA polymerase I, ...
Authors:Chim, N, Jackson, L.N, Chaput, J.C.
Deposit date:2018-06-14
Release date:2018-10-31
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.
Elife, 7, 2018
3LWL
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BU of 3lwl by Molmil
Structure of Klenow fragment of Taq polymerase in complex with an abasic site
Descriptor: 2',3'-dideoxyadenosine triphosphate, ACETATE ION, DNA (5'-D(*AP*AP*AP*(3DR)P*TP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), ...
Authors:Marx, A, Diederichs, K, Obeid, S.
Deposit date:2010-02-24
Release date:2010-05-05
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Replication through an abasic DNA lesion: structural basis for adenine selectivity
Embo J., 29, 2010
6DSX
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BU of 6dsx by Molmil
Bst DNA polymerase I post-chemistry (n+1 with dATP soak) structure
Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(*GP*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ...
Authors:Chim, N, Jackson, L.N, Chaput, J.C.
Deposit date:2018-06-14
Release date:2018-10-31
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.
Elife, 7, 2018
3M8R
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BU of 3m8r by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus aquaticus in a closed ternary complex with trapped 4'-ethylated dTTP
Descriptor: 4'-ethylthymidine 5'-(tetrahydrogen triphosphate), ACETATE ION, DNA (5'-D(*AP*AP*AP*AP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), ...
Authors:Diederichs, K, Marx, A, Betz, K.
Deposit date:2010-03-19
Release date:2010-07-07
Last modified:2023-09-06
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structures of DNA polymerases caught processing size-augmented nucleotide probes.
Angew.Chem.Int.Ed.Engl., 49, 2010
3M8S
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BU of 3m8s by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus aquaticus in a closed ternary complex with trapped 4'-methylated dTTP
Descriptor: 4'-methylthymidine 5'-(tetrahydrogen triphosphate), ACETATE ION, DI(HYDROXYETHYL)ETHER, ...
Authors:Diederichs, K, Marx, A, Betz, K.
Deposit date:2010-03-19
Release date:2010-07-07
Last modified:2023-09-06
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Structures of DNA polymerases caught processing size-augmented nucleotide probes.
Angew.Chem.Int.Ed.Engl., 49, 2010
1XC9
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BU of 1xc9 by Molmil
Structure of a high-fidelity polymerase bound to a benzo[a]pyrene adduct that blocks replication
Descriptor: 1,2,3-TRIHYDROXY-1,2,3,4-TETRAHYDROBENZO[A]PYRENE, DNA polymerase I, DNA primer strand, ...
Authors:Hsu, G.W, Huang, X, Luneva, N.P, Geacintov, N.E, Beese, L.S.
Deposit date:2004-09-01
Release date:2004-12-14
Last modified:2023-08-23
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structure of a High Fidelity DNA Polymerase Bound to a Benzo[a]pyrene Adduct That Blocks Replication
J.Biol.Chem., 280, 2005
6DSU
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BU of 6dsu by Molmil
Bst DNA polymerase I pre-insertion complex structure
Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine, DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA (5'-D(P*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), ...
Authors:Chim, N, Jackson, L.N, Chaput, J.C.
Deposit date:2018-06-14
Release date:2018-10-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.
Elife, 7, 2018
6DSV
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BU of 6dsv by Molmil
Bst DNA polymerase I post-chemistry (n+2) structure
Descriptor: DNA (5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*TP*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3'), DNA polymerase I, ...
Authors:Chim, N, Jackson, L.N, Chaput, J.C.
Deposit date:2018-06-14
Release date:2018-10-31
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.
Elife, 7, 2018
1XWL
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BU of 1xwl by Molmil
BACILLUS STEAROTHERMOPHILUS (NEWLY IDENTIFIED STRAIN AS YET UNNAMED) DNA POLYMERASE FRAGMENT
Descriptor: DNA POLYMERASE I, SULFATE ION
Authors:Kiefer, J.R, Mao, C, Beese, L.S.
Deposit date:1998-07-22
Release date:1999-01-13
Last modified:2024-05-22
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structure of a thermostable Bacillus DNA polymerase I large fragment at 2.1 A resolution.
Structure, 5, 1997
3SV3
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BU of 3sv3 by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus Aquaticus in a closed ternary complex with the artificial base pair dNaM-d5SICSTP
Descriptor: (5'-D(*AP*AP*AP*(BMN)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'), 2-{2-deoxy-5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-erythro-pentofuranosyl}-6-methylisoquinoline-1(2H)-thione, ...
Authors:Betz, K, Diederichs, K, Marx, A.
Deposit date:2011-07-12
Release date:2012-06-06
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry.
Nat.Chem.Biol., 8, 2012
6N9V
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BU of 6n9v by Molmil
Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) and gp4 (helicase/primase) bound to DNA including RNA/DNA hybrid, and an incoming dTTP (LagS1)
Descriptor: DNA primase/helicase, DNA-directed DNA polymerase, MAGNESIUM ION, ...
Authors:Gao, Y, Fox, T, Val, N, Yang, W.
Deposit date:2018-12-04
Release date:2019-03-06
Last modified:2019-12-18
Method:ELECTRON MICROSCOPY (4 Å)
Cite:Structures and operating principles of the replisome.
Science, 363, 2019
6N9U
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BU of 6n9u by Molmil
Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) interacting with primase domains of two gp4 subunits bound to an RNA/DNA hybrid and dTTP (from LagS1)
Descriptor: DNA (44-MER), DNA primase/helicase, DNA-directed DNA polymerase, ...
Authors:Gao, Y, Fox, T, Val, N, Yang, W.
Deposit date:2018-12-04
Release date:2019-03-06
Last modified:2019-12-18
Method:ELECTRON MICROSCOPY (3.7 Å)
Cite:Structures and operating principles of the replisome.
Science, 363, 2019
6MU5
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BU of 6mu5 by Molmil
Bst DNA polymerase I TNA/DNA binary complex
Descriptor: DNA (5'-D(P*GP*CP*GP*AP*TP*CP*AP*CP*GP*T)-3'), DNA polymerase I, SULFATE ION, ...
Authors:Jackson, L.N, Chim, N, Chaput, J.C.
Deposit date:2018-10-22
Release date:2019-06-05
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.912 Å)
Cite:Crystal structures of a natural DNA polymerase that functions as an XNA reverse transcriptase.
Nucleic Acids Res., 47, 2019
6N9X
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BU of 6n9x by Molmil
Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) and gp4 (helicase/primase) bound to DNA including RNA/DNA hybrid, and an incoming dTTP (LagS3)
Descriptor: DNA primase/helicase, DNA-directed DNA polymerase, MAGNESIUM ION, ...
Authors:Gao, Y, Fox, T, Val, N, Yang, W.
Deposit date:2018-12-04
Release date:2019-03-06
Last modified:2019-12-18
Method:ELECTRON MICROSCOPY (4.1 Å)
Cite:Structures and operating principles of the replisome.
Science, 363, 2019
3SZ2
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BU of 3sz2 by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus Aquaticus in an open binary complex with dG as templating nucleobase
Descriptor: (5'-D(*AP*AP*AP*GP*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'), DNA polymerase I, ...
Authors:Betz, K, Marx, A, Diederichs, K.
Deposit date:2011-07-18
Release date:2012-06-06
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry.
Nat.Chem.Biol., 8, 2012
3T3F
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BU of 3t3f by Molmil
Ternary Structure of the large fragment of Taq DNA polymerase bound to an abasic site and dNITP
Descriptor: 1-{2-DEOXY-5-O-[(R)-HYDROXY{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}PHOSPHORYL]-BETA-D-ERYTHRO-PENTOFURANOSYL}-5-NITRO -1H-INDOLE, 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', ...
Authors:Marx, A, Diederichs, K, Obeid, S.
Deposit date:2011-07-25
Release date:2012-02-15
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Amino acid templating mechanisms in selection of nucleotides opposite abasic sites by a family a DNA polymerase.
J.Biol.Chem., 287, 2012
6N9W
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BU of 6n9w by Molmil
Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) and gp4 (helicase/primase) bound to DNA including RNA/DNA hybrid, and an incoming dTTP (LagS2)
Descriptor: DNA primase/helicase, DNA-directed DNA polymerase, MAGNESIUM ION, ...
Authors:Gao, Y, Cui, Y, Zhou, Z, Yang, W.
Deposit date:2018-12-04
Release date:2019-03-06
Last modified:2019-12-18
Method:ELECTRON MICROSCOPY (4 Å)
Cite:Structures and operating principles of the replisome.
Science, 363, 2019
3RTV
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BU of 3rtv by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus Aquaticus in a closed ternary complex with natural primer/template DNA
Descriptor: (5'-D(*AP*AP*AP*GP*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'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, ...
Authors:Marx, A, Diederichs, K, Betz, K.
Deposit date:2011-05-04
Release date:2012-05-30
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry.
Nat.Chem.Biol., 8, 2012
3SV4
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BU of 3sv4 by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus Aquaticus in an open binary complex with dT as templating nucleobase
Descriptor: (5'-D(*AP*AP*AP*TP*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:Betz, K, Diederichs, K, Marx, A.
Deposit date:2011-07-12
Release date:2012-06-06
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry.
Nat.Chem.Biol., 8, 2012
3SYZ
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BU of 3syz by Molmil
Crystal structure of the large fragment of DNA polymerase I from Thermus Aquaticus in an open binary complex with dNaM as templating nucleobase
Descriptor: (5'-D(*AP*AP*AP*(BMN)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:Betz, K, Diederichs, K, Marx, A.
Deposit date:2011-07-18
Release date:2012-06-06
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.952 Å)
Cite:KlenTaq polymerase replicates unnatural base pairs by inducing a Watson-Crick geometry.
Nat.Chem.Biol., 8, 2012
5YTE
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BU of 5yte by Molmil
Large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with with natural dT:dATP base pair
Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*AP*AP*AP*TP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3'), ...
Authors:Zeng, H, Mondal, M, Song, R.Y, Zhang, J, Xia, B, Gao, Y.Q, Yi, C.Q.
Deposit date:2017-11-17
Release date:2018-11-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:Unnatural Cytosine Bases Recognized as Thymines by DNA Polymerases by the Formation of the Watson-Crick Geometry.
Angew. Chem. Int. Ed. Engl., 58, 2019
5YTF
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BU of 5ytf by Molmil
Structure of large fragment of DNA Polymerase I from Thermus aquaticus Host-Guest complex with the unnatural base M-fC pair with dA
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*AP*AP*AP*CP*GP*GP*CP*GP*CP*CP*GP*(92F)P*GP*GP*TP*C)-3'), DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3'), ...
Authors:Zeng, H, Mondal, M, Song, R.Y, Zhang, J, Xia, B, Gao, Y.Q, Yi, C.Q.
Deposit date:2017-11-17
Release date:2018-11-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Unnatural Cytosine Bases Recognized as Thymines by DNA Polymerases by the Formation of the Watson-Crick Geometry.
Angew. Chem. Int. Ed. Engl., 58, 2019

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