6UW0
 
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1IPP
 | | HOMING ENDONUCLEASE/DNA COMPLEX | | Descriptor: | CADMIUM ION, DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*AP*GP*TP*CP*A)-3'), INTRON-ENCODED ENDONUCLEASE I-PPOI, ... | | Authors: | Flick, K.E, Jurica, M.S, Monnat Jr, R.J, Stoddard, B.L. | | Deposit date: | 1998-03-19 | | Release date: | 1998-09-02 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI.
Nature, 394, 1998
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2OST
 | | The structure of a bacterial homing endonuclease : I-Ssp6803I | | Descriptor: | CALCIUM ION, Putative endonuclease, Synthetic DNA 29 MER | | Authors: | Zhao, L, Bonocora, R.P, Shub, D.A, Stoddard, B.L. | | Deposit date: | 2007-02-06 | | Release date: | 2007-03-20 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (3.1 Å) | | Cite: | 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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2QOJ
 | | Coevolution of a homing endonuclease and its host target sequence | | Descriptor: | I-AniI DNA target seq1, I-AniI DNA target seq2, LAGLIDADG endonuclease, ... | | Authors: | Scalley-Kim, M, McConnell Smith, A, Stoddard, B.L. | | Deposit date: | 2007-07-20 | | Release date: | 2008-11-11 | | Last modified: | 2021-10-20 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Coevolution of a homing endonuclease and its host target sequence.
J.Mol.Biol., 372, 2007
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1YSB
 | | Yeast Cytosine Deaminase Triple Mutant | | Descriptor: | CALCIUM ION, Cytosine deaminase, ZINC ION | | Authors: | Korkegian, A, Black, M.E, Baker, D, Stoddard, B.L. | | Deposit date: | 2005-02-08 | | Release date: | 2005-05-17 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Computational thermostabilization of an enzyme.
Science, 308, 2005
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1YSD
 | | Yeast Cytosine Deaminase Double Mutant | | Descriptor: | CALCIUM ION, Cytosine deaminase, ZINC ION | | Authors: | Korkegian, A, Black, M.E, Baker, D, Stoddard, B.L. | | Deposit date: | 2005-02-08 | | Release date: | 2005-05-17 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Computational thermostabilization of an enzyme.
Science, 308, 2005
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299D
 | | CAPTURING THE STRUCTURE OF A CATALYTIC RNA INTERMEDIATE: THE HAMMERHEAD RIBOZYME | | Descriptor: | RNA HAMMERHEAD RIBOZYME | | Authors: | Scott, W.G, Murray, J.B, Arnold, J.R.P, Stoddard, B.L, Klug, A. | | Deposit date: | 1996-12-14 | | Release date: | 1997-01-24 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Capturing the structure of a catalytic RNA intermediate: the hammerhead ribozyme.
Science, 274, 1996
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2O3K
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2O6M
 | | H98Q mutant of the homing endonuclease I-PPOI complexed with DNA | | Descriptor: | 5'-D(*DTP*DTP*DGP*DAP*DCP*DTP*DCP*DTP*DCP*DTP*DTP*DAP*DAP*DGP*DAP*DGP*DAP*DGP*DTP*DCP*DA)-3', Intron-encoded endonuclease I-PpoI, MAGNESIUM ION, ... | | Authors: | Eastberg, J.H, Stoddard, B.L. | | Deposit date: | 2006-12-07 | | Release date: | 2007-10-30 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Mutability of an HNH nuclease imidazole general base and exchange of a deprotonation mechanism.
Biochemistry, 46, 2007
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5ESP
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3UGM
 | | Structure of TAL effector PthXo1 bound to its DNA target | | Descriptor: | DNA-1, DNA-2, TAL effector AvrBs3/PthA | | Authors: | Mak, A.N.S, Bradley, P, Cernadas, R.A, Bogdanove, A.J, Stoddard, B.L. | | Deposit date: | 2011-11-02 | | Release date: | 2012-01-04 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | The Crystal Structure of TAL Effector PthXo1 Bound to Its DNA Target.
Science, 335, 2012
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6MAF
 | | native BbvCI A2B2 tetramer at low resolution | | Descriptor: | BbvCI endonuclease subunit 1, BbvCI endonuclease subunit 2 | | Authors: | Shen, B.W, Stoddard, B.L. | | Deposit date: | 2018-08-27 | | Release date: | 2018-11-14 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (3.79 Å) | | Cite: | Structure, subunit organization and behavior of the asymmetric Type IIT restriction endonuclease BbvCI.
Nucleic Acids Res., 47, 2019
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6M9G
 | | BbvCI B2 dimer with Ta6Br14 clusters | | Descriptor: | 1,2-ETHANEDIOL, ACETATE ION, BROMIDE ION, ... | | Authors: | Shen, B.W, Stoddard, B.L. | | Deposit date: | 2018-08-23 | | Release date: | 2018-11-14 | | Last modified: | 2023-06-28 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structure, subunit organization and behavior of the asymmetric Type IIT restriction endonuclease BbvCI.
Nucleic Acids Res., 47, 2019
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6MAG
 | | native BbvCI B2 dimer in space group C222 | | Descriptor: | ACETATE ION, BbvCI endonuclease subunit 2, GLYCEROL, ... | | Authors: | Shen, B.W, Stoddard, B.L. | | Deposit date: | 2018-08-27 | | Release date: | 2018-11-14 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (2.07 Å) | | Cite: | Structure, subunit organization and behavior of the asymmetric Type IIT restriction endonuclease BbvCI.
Nucleic Acids Res., 47, 2019
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1IDE
 | | ISOCITRATE DEHYDROGENASE Y160F MUTANT STEADY-STATE INTERMEDIATE COMPLEX (LAUE DETERMINATION) | | Descriptor: | ISOCITRATE DEHYDROGENASE, ISOCITRIC ACID, MAGNESIUM ION, ... | | Authors: | Bolduc, J.M, Dyer, D.H, Scott, W.G, Singer, P, Sweet, R.M, Koshland Junior, D.E, Stoddard, B.L. | | Deposit date: | 1995-01-18 | | Release date: | 1996-03-08 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Mutagenesis and Laue structures of enzyme intermediates: isocitrate dehydrogenase.
Science, 268, 1995
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6OHH
 | | Structure of EF1p2_mFAP2b bound to DFHBI | | Descriptor: | (5Z)-5-(3,5-difluoro-4-hydroxybenzylidene)-2,3-dimethyl-3,5-dihydro-4H-imidazol-4-one, CALCIUM ION, EF1p2_mFAP2b | | Authors: | Doyle, L.A, Stoddard, B.L. | | Deposit date: | 2019-04-05 | | Release date: | 2020-04-08 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Incorporation of sensing modalities into de novo designed fluorescence-activating proteins
Nat Commun, 12, 2021
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6CZG
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6CZJ
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6CZH
 | | Structure of a redesigned beta barrel, mFAP0, bound to DFHBI | | Descriptor: | (5Z)-5-(3,5-difluoro-4-hydroxybenzylidene)-2,3-dimethyl-3,5-dihydro-4H-imidazol-4-one, mFAP0 | | Authors: | Doyle, L.A, Stoddard, B.L. | | Deposit date: | 2018-04-09 | | Release date: | 2018-09-19 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | De novo design of a fluorescence-activating beta-barrel.
Nature, 561, 2018
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6CZI
 | | Structure of a redesigned beta barrel, mFAP1, bound to DFHBI | | Descriptor: | (5Z)-5-(3,5-difluoro-4-hydroxybenzylidene)-2,3-dimethyl-3,5-dihydro-4H-imidazol-4-one, mFAP1 | | Authors: | Doyle, L.A, Stoddard, B.L. | | Deposit date: | 2018-04-09 | | Release date: | 2018-09-19 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | De novo design of a fluorescence-activating beta-barrel.
Nature, 561, 2018
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6D0T
 | | De novo design of a fluorescence-activating beta barrel - BB1 | | Descriptor: | BB1 | | Authors: | Dou, J, Vorobieva, A.A, Sheffler, W, Doyle, L.A, Park, H, Bick, M.J, Mao, B, Foight, G.W, Lee, M, Carter, L, Sankaran, B, Ovchinnikov, S, Marcos, E, Huang, P, Vaughan, J.C, Stoddard, B.L, Baker, D. | | Deposit date: | 2018-04-10 | | Release date: | 2018-09-19 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.63 Å) | | Cite: | De novo design of a fluorescence-activating beta-barrel.
Nature, 561, 2018
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6EG7
 | | BbvCI B2 dimer with I3C clusters | | Descriptor: | 1,2-ETHANEDIOL, 5-amino-2,4,6-triiodobenzene-1,3-dicarboxylic acid, BbvCI endonuclease subunit 2, ... | | Authors: | Shen, B.W, Stoddard, B.L. | | Deposit date: | 2018-08-19 | | Release date: | 2018-11-14 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structure, subunit organization and behavior of the asymmetric Type IIT restriction endonuclease BbvCI.
Nucleic Acids Res., 47, 2019
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1A73
 | | INTRON-ENCODED ENDONUCLEASE I-PPOI COMPLEXED WITH DNA | | Descriptor: | DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*A)-3'), DNA (5'-D(P*GP*AP*GP*AP*GP*TP*CP*A)-3'), INTRON 3 (I-PPO) ENCODED ENDONUCLEASE, ... | | Authors: | Flick, K.E, Monnat Junior, R.J, Stoddard, B.L. | | Deposit date: | 1998-03-19 | | Release date: | 1998-10-14 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI.
Nature, 394, 1998
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1K6W
 | | The Structure of Escherichia coli Cytosine Deaminase | | Descriptor: | Cytosine Deaminase, FE (III) ION | | Authors: | Ireton, G.C, McDermott, G, Black, M.E, Stoddard, B.L. | | Deposit date: | 2001-10-17 | | Release date: | 2002-02-06 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | The structure of Escherichia coli cytosine deaminase.
J.Mol.Biol., 315, 2002
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1K70
 | | The Structure of Escherichia coli Cytosine Deaminase bound to 4-Hydroxy-3,4-Dihydro-1H-Pyrimidin-2-one | | Descriptor: | 4-HYDROXY-3,4-DIHYDRO-1H-PYRIMIDIN-2-ONE, Cytosine Deaminase, FE (III) ION | | Authors: | Ireton, G.C, McDermott, G, Black, M.E, Stoddard, B.L. | | Deposit date: | 2001-10-17 | | Release date: | 2002-02-06 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | The structure of Escherichia coli cytosine deaminase.
J.Mol.Biol., 315, 2002
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