4LQ0
 
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4LOX
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3G77
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7RKC
 | | Computationally designed tunable C2 symmetric tandem repeat homodimer, D_3_633 | | 分子名称: | ACETATE ION, D_3_633 | | 著者 | Kennedy, M.A, Stoddard, B.L, Hicks, D.R, Bera, A.K. | | 登録日 | 2021-07-22 | | 公開日 | 2022-05-18 | | 最終更新日 | 2024-04-03 | | 実験手法 | X-RAY DIFFRACTION (2.35 Å) | | 主引用文献 | De novo design of protein homodimers containing tunable symmetric protein pockets.
Proc.Natl.Acad.Sci.USA, 119, 2022
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7T8L
 | | BrxR from Acinetobacter BREX type I phage restriction system | | 分子名称: | 1,2-ETHANEDIOL, BrxR, CHLORIDE ION | | 著者 | Doyle, L, Kaiser, B, Stoddard, B. | | 登録日 | 2021-12-16 | | 公開日 | 2022-05-18 | | 最終更新日 | 2022-06-01 | | 実験手法 | X-RAY DIFFRACTION (2 Å) | | 主引用文献 | Identification and characterization of the WYL BrxR protein and its gene as separable regulatory elements of a BREX phage restriction system.
Nucleic Acids Res., 50, 2022
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7T8K
 | | BrxR from Acinetobacter BREX type I phage restriction system bound to DNA | | 分子名称: | 1,2-ETHANEDIOL, BrxR, CHLORIDE ION, ... | | 著者 | Doyle, L, Kaiser, B, Stoddard, B. | | 登録日 | 2021-12-16 | | 公開日 | 2022-05-18 | | 最終更新日 | 2024-04-03 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | Identification and characterization of the WYL BrxR protein and its gene as separable regulatory elements of a BREX phage restriction system.
Nucleic Acids Res., 50, 2022
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5IEN
 | | Structure of CDL2.2, a computationally designed Vitamin-D3 binder | | 分子名称: | 3-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANOL, CDL2.2, GLYCEROL | | 著者 | Stoddard, B.L, Doyle, L.A. | | 登録日 | 2016-02-25 | | 公開日 | 2017-03-01 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (2.089 Å) | | 主引用文献 | Unintended specificity of an engineered ligand-binding protein facilitated by unpredicted plasticity of the protein fold.
Protein Eng.Des.Sel., 31, 2018
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5IEO
 | | Structure of CDL2.3a, a computationally designed Vitamin-D3 binder | | 分子名称: | 1,2-ETHANEDIOL, 3-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE-CYCLOHEXANOL, CDL2.3a | | 著者 | Stoddard, B.L, Doyle, L.A. | | 登録日 | 2016-02-25 | | 公開日 | 2017-03-01 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (1.851 Å) | | 主引用文献 | Unintended specificity of an engineered ligand-binding protein facilitated by unpredicted plasticity of the protein fold.
Protein Eng.Des.Sel., 31, 2018
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5IEP
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4OYD
 | | Crystal structure of a computationally designed inhibitor of an Epstein-Barr viral Bcl-2 protein | | 分子名称: | 1,2-ETHANEDIOL, Apoptosis regulator BHRF1, Computationally designed Inhibitor | | 著者 | Shen, B, Procko, E, Baker, D, Stoddard, B. | | 登録日 | 2014-02-11 | | 公開日 | 2014-07-09 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | A computationally designed inhibitor of an epstein-barr viral bcl-2 protein induces apoptosis in infected cells.
Cell, 157, 2014
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5E63
 | | K262A mutant of I-SmaMI | | 分子名称: | 2-(2-METHOXYETHOXY)ETHANOL, 2-METHOXYETHANOL, DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3'), ... | | 著者 | Shen, B, Stoddard, B. | | 登録日 | 2015-10-09 | | 公開日 | 2016-01-13 | | 最終更新日 | 2023-09-27 | | 実験手法 | X-RAY DIFFRACTION (2.6 Å) | | 主引用文献 | The Structural Basis of Asymmetry in DNA Binding and Cleavage as Exhibited by the I-SmaMI LAGLIDADG Meganuclease.
J.Mol.Biol., 428, 2016
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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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7RMY
 | | De Novo designed tunable protein pockets, D_3-337 | | 分子名称: | De Novo designed tunable homodimer, D_3-337 | | 著者 | Bera, A.K, Hicks, D.R, Kang, A, Sankaran, B, Baker, D. | | 登録日 | 2021-07-28 | | 公開日 | 2022-08-03 | | 最終更新日 | 2024-04-03 | | 実験手法 | X-RAY DIFFRACTION (3.17 Å) | | 主引用文献 | De novo design of protein homodimers containing tunable symmetric protein pockets.
Proc.Natl.Acad.Sci.USA, 119, 2022
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7RMX
 | | Structure of De Novo designed tunable symmetric protein pockets | | 分子名称: | Tunable symmetric protein, D_3_212 | | 著者 | Bera, A.K, Hicks, D.R, Kang, A, Sankaran, B, Baker, D. | | 登録日 | 2021-07-28 | | 公開日 | 2022-08-03 | | 最終更新日 | 2024-04-03 | | 実験手法 | X-RAY DIFFRACTION (1.65 Å) | | 主引用文献 | De novo design of protein homodimers containing tunable symmetric protein pockets.
Proc.Natl.Acad.Sci.USA, 119, 2022
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3O6Y
 | | Robust computational design, optimization, and structural characterization of retroaldol enzymes | | 分子名称: | Retro-Aldolase, SULFATE ION | | 著者 | Althoff, E.A, Wang, L, Jiang, L, Moody, J, Bolduc, J, Lassila, J.K, Wang, Z.Z, Smith, M, Hari, S, Herschlag, D, Stoddard, B.L, Baker, D. | | 登録日 | 2010-07-29 | | 公開日 | 2011-06-29 | | 最終更新日 | 2023-09-06 | | 実験手法 | X-RAY DIFFRACTION (2.091 Å) | | 主引用文献 | Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
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3NXF
 | | Robust computational design, optimization, and structural characterization of retroaldol enzymes | | 分子名称: | Retro-Aldolase, SULFATE ION | | 著者 | Althoff, E.A, Jiang, L, Wang, L, Lassila, J.K, Moody, J, Bolduc, J, Wang, Z.Z, Smith, M, Hari, S, Herschlag, D, Stoddard, B.L, Baker, D. | | 登録日 | 2010-07-13 | | 公開日 | 2011-06-29 | | 最終更新日 | 2023-09-06 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
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3UD6
 | | Structural analyses of covalent enzyme-substrate analogue complexes reveal strengths and limitations of de novo enzyme design | | 分子名称: | 1-(6-METHOXYNAPHTHALEN-2-YL)BUTANE-1,3-DIONE, RETRO-ALDOLASE, SULFATE ION | | 著者 | Baker, D, Stoddard, B.L, Althoff, E.A, Wang, L, Jiang, L, Moody, J, Bolduc, J, Lassila, J, Hilvert, D. | | 登録日 | 2011-10-27 | | 公開日 | 2011-11-23 | | 最終更新日 | 2023-09-13 | | 実験手法 | X-RAY DIFFRACTION (2.091 Å) | | 主引用文献 | Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
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5CW9
 | | Crystal structure of De novo designed ferredoxin-ferredoxin domain insertion protein | | 分子名称: | De novo designed ferredoxin-ferredoxin domain insertion protein | | 著者 | DiMaio, F, King, I.C, Gleixner, J, Doyle, L, Stoddard, B, Baker, D. | | 登録日 | 2015-07-28 | | 公開日 | 2015-09-23 | | 最終更新日 | 2024-03-06 | | 実験手法 | X-RAY DIFFRACTION (3.108 Å) | | 主引用文献 | Precise assembly of complex beta sheet topologies from de novo designed building blocks.
Elife, 4, 2015
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5E67
 | | K103A/K262A double mutant of I-SmaMI | | 分子名称: | 2-(2-METHOXYETHOXY)ETHANOL, 2-METHOXYETHANOL, DNA bottom strand, ... | | 著者 | Shen, B.W, Stoddard, B. | | 登録日 | 2015-10-09 | | 公開日 | 2016-01-13 | | 最終更新日 | 2024-03-06 | | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | | 主引用文献 | The Structural Basis of Asymmetry in DNA Binding and Cleavage as Exhibited by the I-SmaMI LAGLIDADG Meganuclease.
J.Mol.Biol., 428, 2016
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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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4IWW
 | | Computational Design of an Unnatural Amino Acid Metalloprotein with Atomic Level Accuracy | | 分子名称: | COBALT (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 (2.3 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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