3UVF
 
 | | Expanding LAGALIDADG endonuclease scaffold diversity by rapidly surveying evolutionary sequence space | | 分子名称: | CALCIUM ION, DI(HYDROXYETHYL)ETHER, Intron-encoded DNA endonuclease I-HjeMI, ... | | 著者 | Jacoby, K, Metzger, M, Shen, B, Jarjour, J, Stoddard, B, Scharenberg, A. | | 登録日 | 2011-11-29 | | 公開日 | 2012-02-29 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (3 Å) | | 主引用文献 | Expanding LAGLIDADG endonuclease scaffold diversity by rapidly surveying evolutionary sequence space.
Nucleic Acids Res., 40, 2012
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5TGQ
 | | Restriction-modification system Type II R.SwaI, DNA free | | 分子名称: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ACETATE ION, CALCIUM ION, ... | | 著者 | Shen, B.W, stoddard, B.L. | | 登録日 | 2016-09-28 | | 公開日 | 2016-12-21 | | 最終更新日 | 2024-03-06 | | 実験手法 | X-RAY DIFFRACTION (1.88 Å) | | 主引用文献 | DNA recognition by the SwaI restriction endonuclease involves unusual distortion of an 8 base pair A:T-rich target.
Nucleic Acids Res., 45, 2017
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1U0C
 | | Y33C Mutant of Homing endonuclease I-CreI | | 分子名称: | 5'-D(*CP*GP*TP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*AP*GP*C)-3', 5'-D(*GP*CP*TP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*AP*CP*G)-3', DNA endonuclease I-CreI, ... | | 著者 | Sussman, D, Chadsey, M, Fauce, S, Engel, A, Bruett, A, Monnat, R, Stoddard, B.L, Seligman, L.M. | | 登録日 | 2004-07-13 | | 公開日 | 2004-11-02 | | 最終更新日 | 2024-02-14 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Isolation and characterization of new homing endonuclease specificities at individual target site positions.
J.Mol.Biol., 342, 2004
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4IX0
 | | Computational Design of an Unnatural Amino Acid Metalloprotein with Atomic Level Accuracy | | 分子名称: | NICKEL (II) ION, SULFATE ION, Unnatural Amino Acid Mediated Metalloprotein | | 著者 | Mills, J, Bolduc, J, Khare, S, Stoddard, B, Baker, D. | | 登録日 | 2013-01-24 | | 公開日 | 2013-08-21 | | 最終更新日 | 2023-11-15 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Computational design of an unnatural amino Acid dependent metalloprotein with atomic level accuracy.
J.Am.Chem.Soc., 135, 2013
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1U0D
 | | Y33H Mutant of Homing endonuclease I-CreI | | 分子名称: | 5'-D(*CP*GP*GP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*CP*GP*C)-3', 5'-D(*GP*CP*GP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*CP*CP*G)-3', DNA endonuclease I-CreI | | 著者 | Sussman, D, Chadsey, M, Fauce, S, Engel, A, Bruett, A, Monnat, R, Stoddard, B.L, Seligman, L.M. | | 登録日 | 2004-07-13 | | 公開日 | 2004-11-02 | | 最終更新日 | 2024-02-14 | | 実験手法 | X-RAY DIFFRACTION (2.9 Å) | | 主引用文献 | Isolation and characterization of new homing endonuclease specificities at individual target site positions.
J.Mol.Biol., 342, 2004
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2OST
 | | The structure of a bacterial homing endonuclease : I-Ssp6803I | | 分子名称: | CALCIUM ION, Putative endonuclease, Synthetic DNA 29 MER | | 著者 | Zhao, L, Bonocora, R.P, Shub, D.A, Stoddard, B.L. | | 登録日 | 2007-02-06 | | 公開日 | 2007-03-20 | | 最終更新日 | 2024-02-21 | | 実験手法 | X-RAY DIFFRACTION (3.1 Å) | | 主引用文献 | The restriction fold turns to the dark side: a bacterial homing endonuclease with a PD-(D/E)-XK motif.
Embo J., 26, 2007
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8E0N
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8E0M
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8E12
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8E0L
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1N3F
 | | Crystal structure of I-CreI bound to a palindromic DNA sequence II (palindrome of right side of wildtype DNA target sequence) | | 分子名称: | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*GP*A)-3', 5'-D(P*GP*AP*CP*AP*GP*TP*TP*TP*CP*G-3'), CALCIUM ION, ... | | 著者 | Chevalier, B, Turmel, M, Lemieux, C, Monnat, R.J, Stoddard, B.L. | | 登録日 | 2002-10-28 | | 公開日 | 2003-06-03 | | 最終更新日 | 2024-02-14 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Flexible DNA Target Site Recognition by Divergent Homing Endonuclease Isoschizomers I-CreI and I-MsoI
J.Mol.Biol., 329, 2003
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2O6M
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8EPX
 | | Type IIS Restriction Endonuclease PaqCI, DNA bound | | 分子名称: | CALCIUM ION, DNA 1a, DNA 1b, ... | | 著者 | Kennedy, M.A, Stoddard, B.L. | | 登録日 | 2022-10-06 | | 公開日 | 2023-03-22 | | 最終更新日 | 2024-06-19 | | 実験手法 | ELECTRON MICROSCOPY (3.15 Å) | | 主引用文献 | Structures, activity and mechanism of the Type IIS restriction endonuclease PaqCI.
Nucleic Acids Res., 51, 2023
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3I1C
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3MIP
 | | I-MsoI re-designed for altered DNA cleavage specificity (-8GCG) | | 分子名称: | CALCIUM ION, DNA (5'-D(*CP*GP*GP*AP*GP*CP*GP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*CP*GP*CP*CP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*GP*GP*CP*GP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*CP*GP*CP*TP*CP*CP*G)-3'), ... | | 著者 | Taylor, G.K, Stoddard, B.L. | | 登録日 | 2010-04-11 | | 公開日 | 2010-05-19 | | 最終更新日 | 2024-02-21 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs.
Nucleic Acids Res., 38, 2010
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1G9Y
 | | HOMING ENDONUCLEASE I-CREI / DNA SUBSTRATE COMPLEX WITH CALCIUM | | 分子名称: | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*TP*TP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*TP*TP*TP*CP*G)-3', CALCIUM ION, ... | | 著者 | Chevalier, B, Monnat, R.J, Stoddard, B.L. | | 登録日 | 2000-11-28 | | 公開日 | 2001-04-02 | | 最終更新日 | 2023-08-09 | | 実験手法 | X-RAY DIFFRACTION (2.05 Å) | | 主引用文献 | The homing endonuclease I-CreI uses three metals, one of which is shared between the two active sites.
Nat.Struct.Biol., 8, 2001
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4OUD
 | | Engineered tyrosyl-tRNA synthetase with the nonstandard amino acid L-4,4-biphenylalanine | | 分子名称: | TYROSINE, Tyrosyl-tRNA synthetase | | 著者 | Takeuchi, R, Mandell, D.J, Lajoie, M.J, Church, G.M, Stoddard, B.L. | | 登録日 | 2014-02-16 | | 公開日 | 2015-01-28 | | 最終更新日 | 2023-09-20 | | 実験手法 | X-RAY DIFFRACTION (2.65 Å) | | 主引用文献 | Biocontainment of genetically modified organisms by synthetic protein design.
Nature, 518, 2015
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1UJZ
 | | Crystal structure of the E7_C/Im7_C complex; a computationally designed interface between the colicin E7 DNase and the Im7 Immunity protein | | 分子名称: | Designed Colicin E7 DNase, Designed Colicin E7 immunity protein | | 著者 | Kortemme, T, Joachimiak, L.A, Bullock, A.N, Schuler, A.D, Stoddard, B.L, Baker, D. | | 登録日 | 2003-08-13 | | 公開日 | 2004-04-06 | | 最終更新日 | 2023-10-25 | | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | | 主引用文献 | Computational redesign of protein-protein interaction specificity
NAT.STRUCT.MOL.BIOL., 11, 2004
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2QOJ
 | | Coevolution of a homing endonuclease and its host target sequence | | 分子名称: | I-AniI DNA target seq1, I-AniI DNA target seq2, LAGLIDADG endonuclease, ... | | 著者 | Scalley-Kim, M, McConnell Smith, A, Stoddard, B.L. | | 登録日 | 2007-07-20 | | 公開日 | 2008-11-11 | | 最終更新日 | 2021-10-20 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | Coevolution of a homing endonuclease and its host target sequence.
J.Mol.Biol., 372, 2007
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8E0O
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5BVB
 | | Engineered Digoxigenin binder DIG5.1a | | 分子名称: | DIG5.1a, DIGOXIGENIN | | 著者 | Doyle, L.A, Stoddard, B.L. | | 登録日 | 2015-06-04 | | 公開日 | 2015-10-28 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (2.06 Å) | | 主引用文献 | CSAR Benchmark Exercise 2013: Evaluation of Results from a Combined Computational Protein Design, Docking, and Scoring/Ranking Challenge.
J.Chem.Inf.Model., 56, 2016
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2FLD
 | | I-MsoI Re-Designed for Altered DNA Cleavage Specificity | | 分子名称: | 5'-D(*CP*GP*GP*AP*AP*CP*GP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*CP*TP*TP*CP*TP*GP*C)-3', 5'-D(*GP*CP*AP*GP*AP*AP*GP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*CP*GP*TP*TP*CP*CP*G)-3', CALCIUM ION, ... | | 著者 | Ashworth, J, Duarte, C.M, Havranek, J.J, Sussman, D, Monnat, R.J, Stoddard, B.L, Baker, D. | | 登録日 | 2006-01-05 | | 公開日 | 2006-06-06 | | 最終更新日 | 2023-08-30 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Computational redesign of endonuclease DNA binding and cleavage specificity.
Nature, 441, 2006
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3MIS
 | | I-MsoI re-designed for altered DNA cleavage specificity (-8G) | | 分子名称: | CALCIUM ION, DNA (5'-D(*CP*GP*GP*AP*GP*CP*TP*GP*TP*CP*TP*CP*AP*CP*GP*AP*CP*GP*TP*CP*CP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*GP*GP*AP*CP*GP*TP*CP*GP*TP*GP*AP*GP*AP*CP*AP*GP*CP*TP*CP*CP*G)-3'), ... | | 著者 | Taylor, G.K, Stoddard, B.L. | | 登録日 | 2010-04-12 | | 公開日 | 2010-05-19 | | 最終更新日 | 2023-09-06 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs.
Nucleic Acids Res., 38, 2010
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3E0L
 | | Computationally Designed Ammelide Deaminase | | 分子名称: | Guanine deaminase, ZINC ION | | 著者 | Murphy, P.M, Bolduc, J.M, Gallaher, J.L, Stoddard, B.L, Baker, D. | | 登録日 | 2008-07-31 | | 公開日 | 2009-03-03 | | 最終更新日 | 2023-08-30 | | 実験手法 | X-RAY DIFFRACTION (2.37 Å) | | 主引用文献 | Alteration of enzyme specificity by computational loop remodeling and design.
Proc.Natl.Acad.Sci.USA, 106, 2009
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1G9Z
 | | LAGLIDADG HOMING ENDONUCLEASE I-CREI / DNA PRODUCT COMPLEX WITH MAGNESIUM | | 分子名称: | 5'-D(*CP*GP*AP*AP*AP*CP*TP*GP*TP*CP*TP*CP*AP*C)-3', 5'-D(*GP*CP*AP*AP*AP*AP*CP*GP*TP*CP*GP*TP*GP*A)-3', 5'-D(P*GP*AP*CP*AP*GP*TP*TP*TP*CP*G)-3', ... | | 著者 | Chevalier, B, Monnat, R.J, Stoddard, B.L. | | 登録日 | 2000-11-28 | | 公開日 | 2001-04-02 | | 最終更新日 | 2023-08-09 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | The homing endonuclease I-CreI uses three metals, one of which is shared between the two active sites.
Nat.Struct.Biol., 8, 2001
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