Author results

4LOX
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CRYSTAL STRUCTURE OF THE I-SMAMI LAGLIDADG HOMING ENDONUCLEASE BOUND TO CLEAVED DNA
Descriptor:LAGLIDADG homing endonuclease I-SmaMI, DNA (5'-D(*CP*GP*TP*AP*CP*AP*CP*CP*TP*GP*AP*TP*AP*A)-3'), DNA (5'-D(P*TP*GP*GP*AP*GP*GP*AP*TP*AP*CP*C)-3'), ...
Authors:Chik, J., Shen, B., Stoddard, B.
Deposit date:2013-07-14
Release date:2014-09-24
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Crystal structure of a LAGLIDADG endonuclease from the Sordaria Macrospore.
To be Published
4LQ0
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CRYSTAL STRUCTURE OF THE I-LTRWI LAGLIDADG HOMING ENDONUCLEASE BOUND TO TARGET DNA.
Descriptor:LAGLIDADG homing endonuclease, top strand DNA target, bottom strand DNA target, ...
Authors:Chik, J., Shen, B., Stoddard, B.
Deposit date:2013-07-16
Release date:2014-07-16
Method:X-RAY DIFFRACTION (2.68 Å)
Cite:Structural Comparisons of LAGLIDADG Homing Endonucleases.
To be Published
3G77
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BACTERIAL CYTOSINE DEAMINASE V152A/F316C/D317G MUTANT
Descriptor:Cytosine deaminase, FE (III) ION
Authors:Stoddard, B., Zhao, L.
Deposit date:2009-02-09
Release date:2009-09-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Bacterial cytosine deaminase mutants created by molecular engineering show improved 5-fluorocytosine-mediated cell killing in vitro and in vivo.
Cancer Res., 69, 2009
3UVF
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EXPANDING LAGALIDADG ENDONUCLEASE SCAFFOLD DIVERSITY BY RAPIDLY SURVEYING EVOLUTIONARY SEQUENCE SPACE
Descriptor:Intron-encoded DNA endonuclease I-HjeMI, synthetic oligo, CALCIUM ION, ...
Authors:Jacoby, K., Metzger, M., Shen, B., Jarjour, J., Stoddard, B., Scharenberg, A.
Deposit date:2011-11-29
Release date:2012-02-29
Last modified:2012-08-01
Method:X-RAY DIFFRACTION (3 Å)
Cite:Expanding LAGLIDADG endonuclease scaffold diversity by rapidly surveying evolutionary sequence space.
Nucleic Acids Res., 40, 2012
4OYD
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CRYSTAL STRUCTURE OF A COMPUTATIONALLY DESIGNED INHIBITOR OF AN EPSTEIN-BARR VIRAL BCL-2 PROTEIN
Descriptor:Apoptosis regulator BHRF1, Computationally designed Inhibitor, 1,2-ETHANEDIOL
Authors:Shen, B., Procko, E., Baker, D., Stoddard, B.
Deposit date:2014-02-11
Release date:2014-07-09
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:A computationally designed inhibitor of an epstein-barr viral bcl-2 protein induces apoptosis in infected cells.
Cell, 157, 2014
5E63
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K262A MUTANT OF I-SMAMI
Descriptor:I-SmaMI LAGLIDADG meganuclease, DNA right half site Bottom strand, DNA left half site bottom strand, ...
Authors:Shen, B., Stoddard, B.
Deposit date:2015-10-09
Release date:2016-01-13
Last modified:2016-04-06
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The Structural Basis of Asymmetry in DNA Binding and Cleavage as Exhibited by the I-SmaMI LAGLIDADG Meganuclease.
J.Mol.Biol., 428, 2016
3NXF
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ROBUST COMPUTATIONAL DESIGN, OPTIMIZATION, AND STRUCTURAL CHARACTERIZATION OF RETROALDOL ENZYMES
Descriptor:Retro-Aldolase, SULFATE ION
Authors: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.
Deposit date:2010-07-13
Release date:2011-06-29
Last modified:2017-11-08
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
3O6Y
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ROBUST COMPUTATIONAL DESIGN, OPTIMIZATION, AND STRUCTURAL CHARACTERIZATION OF RETROALDOL ENZYMES
Descriptor:Retro-Aldolase, SULFATE ION
Authors: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.
Deposit date:2010-07-29
Release date:2011-06-29
Last modified:2017-11-08
Method:X-RAY DIFFRACTION (2.091 Å)
Cite:Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
3UD6
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STRUCTURAL ANALYSES OF COVALENT ENZYME-SUBSTRATE ANALOGUE COMPLEXES REVEAL STRENGTHS AND LIMITATIONS OF DE NOVO ENZYME DESIGN
Descriptor:RETRO-ALDOLASE, 1-(6-METHOXYNAPHTHALEN-2-YL)BUTANE-1,3-DIONE, SULFATE ION
Authors:Baker, D., Stoddard, B.L., Althoff, E.A., Wang, L., Jiang, L., Moody, J., Bolduc, J., Lassila, J., Hilvert, D.
Deposit date:2011-10-27
Release date:2011-11-23
Last modified:2013-11-20
Method:X-RAY DIFFRACTION (2.091 Å)
Cite:Structural analyses of covalent enzyme-substrate analog complexes reveal strengths and limitations of de novo enzyme design.
J.Mol.Biol., 415, 2012
4IWW
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COMPUTATIONAL DESIGN OF AN UNNATURAL AMINO ACID METALLOPROTEIN WITH ATOMIC LEVEL ACCURACY
Descriptor:Unnatural Amino Acid Mediated Metalloprotein, SULFATE ION, COBALT (II) ION
Authors:Mills, J., Bolduc, J., Khare, S., Stoddard, B., Baker, D.
Deposit date:2013-01-24
Release date:2013-08-21
Last modified:2013-09-25
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Computational design of an unnatural amino Acid dependent metalloprotein with atomic level accuracy.
J.Am.Chem.Soc., 135, 2013
4IX0
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COMPUTATIONAL DESIGN OF AN UNNATURAL AMINO ACID METALLOPROTEIN WITH ATOMIC LEVEL ACCURACY
Descriptor:Unnatural Amino Acid Mediated Metalloprotein, NICKEL (II) ION, SULFATE ION
Authors:Mills, J., Bolduc, J., Khare, S., Stoddard, B., Baker, D.
Deposit date:2013-01-24
Release date:2013-08-21
Last modified:2017-11-15
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Computational design of an unnatural amino Acid dependent metalloprotein with atomic level accuracy.
J.Am.Chem.Soc., 135, 2013
5CW9
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CRYSTAL STRUCTURE OF DE NOVO DESIGNED FERREDOXIN-FERREDOXIN DOMAIN INSERTION PROTEIN
Descriptor:De novo designed ferredoxin-ferredoxin domain insertion protein
Authors:DiMaio, F., King, I.C., Gleixner, J., Doyle, L., Stoddard, B., Baker, D.
Deposit date:2015-07-28
Release date:2015-09-23
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (3.108 Å)
Cite:Precise assembly of complex beta sheet topologies from de novo designed building blocks.
Elife, 4, 2015
5E67
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K103A/K262A DOUBLE MUTANT OF I-SMAMI
Descriptor:I-SmaMI LAGLIDADG meganuclease, DNA bottom strand, DNA top strand, ...
Authors:Shen, B.W., Stoddard, B.
Deposit date:2015-10-09
Release date:2016-01-13
Last modified:2017-09-13
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:The Structural Basis of Asymmetry in DNA Binding and Cleavage as Exhibited by the I-SmaMI LAGLIDADG Meganuclease.
J.Mol.Biol., 428, 2016