Author results

3UD6
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STRUCTURAL ANALYSES OF COVALENT ENZYME-SUBSTRATE ANALOGUE COMPLEXES REVEAL STRENGTHS AND LIMITATIONS OF DE NOVO ENZYME DESIGN
分子名称:RETRO-ALDOLASE, 1-(6-METHOXYNAPHTHALEN-2-YL)BUTANE-1,3-DIONE, 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2013-11-20
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
2LPB
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STRUCTURE OF THE COMPLEX OF THE CENTRAL ACTIVATION DOMAIN OF GCN4 BOUND TO THE MEDIATOR CO-ACTIVATOR DOMAIN 1 OF GAL11/MED15
分子名称:Mediator of RNA polymerase II transcription subunit 15, General control protein GCN4
著者Brzovic, P.S., Heikaus, C.C., Kisselev, L., Vernon, R., Herbig, E., Pacheco, D., Warfield, L., Littlefield, P., Baker, D., Klevit, R.E., Hahn, S.
登録日2012-02-07
公開日2012-02-22
実験手法SOLUTION NMR
主引用文献The acidic transcription activator Gcn4 binds the mediator subunit Gal11/Med15 using a simple protein interface forming a fuzzy complex.
Mol.Cell, 44, 2011
2XYY
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DE NOVO MODEL OF BACTERIOPHAGE P22 PROCAPSID COAT PROTEIN
分子名称:COAT PROTEIN
著者Chen, D.-H., Baker, M.L., Hryc, C.F., DiMaio, F., Jakana, J., Wu, W., Dougherty, M., Haase-Pettingell, C., Schmid, M.F., Jiang, W., Baker, D., King, J.A., Chiu, W.
登録日2010-11-19
公開日2011-02-02
最終更新日2018-10-03
実験手法ELECTRON MICROSCOPY (3.8 Å)
主引用文献Structural Basis for Scaffolding-Mediated Assembly and Maturation of a DsDNA Virus.
Proc.Natl.Acad.Sci.USA, 108, 2011
2XYZ
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DE NOVO MODEL OF BACTERIOPHAGE P22 VIRION COAT PROTEIN
分子名称:COAT PROTEIN
著者Chen, D.-H., Baker, M.L., Hryc, C.F., DiMaio, F., Jakana, J., Wu, W., Dougherty, M., Haase-Pettingell, C., Schmid, M.F., Jiang, W., Baker, D., King, J.A., Chiu, W.
登録日2010-11-19
公開日2011-02-02
最終更新日2018-10-03
実験手法ELECTRON MICROSCOPY (4 Å)
主引用文献Structural Basis for Scaffolding-Mediated Assembly and Maturation of a DsDNA Virus.
Proc.Natl.Acad.Sci.USA, 108, 2011
5WP3
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CRYSTAL STRUCTURE OF EED IN COMPLEX WITH EB22
分子名称:Polycomb protein EED, EB22, UNKNOWN ATOM OR ION
著者Dong, C., Tempel, W., Zhu, L., Moody, J.D., Baker, D., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)
登録日2017-08-03
公開日2017-09-13
最終更新日2017-12-06
実験手法X-RAY DIFFRACTION (2.55 Å)
主引用文献First critical repressive H3K27me3 marks in embryonic stem cells identified using designed protein inhibitor.
Proc. Natl. Acad. Sci. U.S.A., 114, 2017
1YSB
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YEAST CYTOSINE DEAMINASE TRIPLE MUTANT
分子名称:Cytosine deaminase, ZINC ION, CALCIUM ION
著者Korkegian, A., Black, M.E., Baker, D., Stoddard, B.L.
登録日2005-02-08
公開日2005-05-17
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Computational thermostabilization of an enzyme.
Science, 308, 2005
1YSD
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YEAST CYTOSINE DEAMINASE DOUBLE MUTANT
分子名称:Cytosine deaminase, ZINC ION, CALCIUM ION
著者Korkegian, A., Black, M.E., Baker, D., Stoddard, B.L.
登録日2005-02-08
公開日2005-05-17
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Computational thermostabilization of an enzyme.
Science, 308, 2005
5KCI
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CRYSTAL STRUCTURE OF HTC1
分子名称:Uncharacterized protein YPL067C, ZINC ION, GLYCEROL, ...
著者Martin, R.M., Horowitz, S., Koepnick, B., Cooper, S., Flatten, J., Rogawski, D.S., Koropatkin, N.M., Beinlich, F.R.M., Players, F., Students, U.M., Popovic, Z., Baker, D., Khatib, F., Bardwell, J.C.A.
登録日2016-06-06
公開日2016-09-21
最終更新日2017-11-01
実験手法X-RAY DIFFRACTION (1.833 Å)
主引用文献Determining crystal structures through crowdsourcing and coursework.
Nat Commun, 7, 2016
1VJQ
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DESIGNED PROTEIN BASED ON BACKBONE CONFORMATION OF PROCARBOXYPEPTIDASE-A (1AYE) WITH SIDECHAINS CHOSEN FOR MAXIMAL PREDICTED STABILITY.
分子名称:designed protein
著者Merritt, E.A., Baker, D., Structural Genomics of Pathogenic Protozoa Consortium (SGPP)
登録日2004-03-19
公開日2004-03-30
最終更新日2017-10-04
実験手法X-RAY DIFFRACTION (2.098 Å)
主引用文献Designed protein based on backbone conformation of procarboxypeptidase-A (1AYE) with sidechains chosen for maximal predicted stability.
To be Published
5IM4
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CRYSTAL STRUCTURE OF DESIGNED TWO-COMPONENT SELF-ASSEMBLING ICOSAHEDRAL CAGE I52-32
分子名称:6,7-dimethyl-8-ribityllumazine synthase, Phosphotransferase system, mannose/fructose-specific component IIA
著者Liu, Y.A., Cascio, D., Sawaya, M.R., Bale, J.B., Collazo, M.J., Thomas, C., Sheffler, W., King, N.P., Baker, D., Yeates, T.O.
登録日2016-03-05
公開日2016-07-27
最終更新日2017-11-01
実験手法X-RAY DIFFRACTION (3.5 Å)
主引用文献Accurate design of megadalton-scale two-component icosahedral protein complexes.
Science, 353, 2016
5IM5
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CRYSTAL STRUCTURE OF DESIGNED TWO-COMPONENT SELF-ASSEMBLING ICOSAHEDRAL CAGE I53-40
分子名称:Designed Riboflavin synthase, Designed Keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase
著者Liu, Y.A., Cascio, D., Sawaya, M.R., Bale, J.B., Collazo, M.J., Thomas, C., Sheffler, W., King, N.P., Baker, D., Yeates, T.O.
登録日2016-03-05
公開日2016-07-27
最終更新日2016-08-10
実験手法X-RAY DIFFRACTION (3.699 Å)
主引用文献Accurate design of megadalton-scale two-component icosahedral protein complexes.
Science, 353, 2016
5IM6
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CRYSTAL STRUCTURE OF DESIGNED TWO-COMPONENT SELF-ASSEMBLING ICOSAHEDRAL CAGE I32-28
分子名称:Designed self-assembling icosahedral cage I32-28 trimeric subunit, Designed self-assembling icosahedral cage I32-28 dimeric subunit
著者Liu, Y.A., Cascio, D., Sawaya, M.R., Bale, J.B., Collazo, M.J., Thomas, C., Sheffler, W., King, N.P., Baker, D., Yeates, T.O.
登録日2016-03-05
公開日2016-07-27
最終更新日2017-11-01
実験手法X-RAY DIFFRACTION (5.588 Å)
主引用文献Accurate design of megadalton-scale two-component icosahedral protein complexes.
Science, 353, 2016
2FLD
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I-MSOI RE-DESIGNED FOR ALTERED DNA CLEAVAGE SPECIFICITY
分子名称: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', 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', DNA ENDONUCLEASE I-MSOI, ...
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2017-10-18
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
2L69
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SOLUTION NMR STRUCTURE OF DE NOVO DESIGNED PROTEIN, P-LOOP NTPASE FOLD, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET OR28
分子名称:Rossmann 2x3 fold protein
著者Liu, G., Koga, N., Koga, R., Xiao, R., Mao, A., Mao, B., Patel, D., Ciccosanti, C., Hamilton, K., Acton, T.B., Baker, D., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)
登録日2010-11-17
公開日2011-01-12
最終更新日2012-02-22
実験手法SOLUTION NMR
主引用文献Solution NMR structure of de novo designed rossmann 2x3 fold protein, Northeast Structural Genomics Consortium Target OR28
To be Published
2LPZ
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ATOMIC MODEL OF THE TYPE-III SECRETION SYSTEM NEEDLE
分子名称:Protein prgI
著者Loquet, A., Sgourakis, N.G., Gupta, R., Giller, K., Riedel, D., Goosmann, C., Griesinger, C., Kolbe, M.G., Baker, D., Becker, S., Lange, A.
登録日2012-02-21
公開日2012-05-16
最終更新日2012-06-27
実験手法SOLID-STATE NMR
主引用文献Atomic model of the type III secretion system needle.
Nature, 486, 2012
2MRA
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SOLUTION NMR STRUCTURE OF DE NOVO DESIGNED PROTEIN, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET OR459
分子名称:De novo designed protein OR459
著者Pulavarti, S.V.S.R.K., Kipnis, Y., Sukumaran, D., Maglaqui, M., Janjua, H., Mao, L., Xiao, R., Kornhaber, G., Baker, D., Montelione, G.T., Szyperski, T., Northeast Structural Genomics Consortium (NESG)
登録日2014-07-02
公開日2014-09-17
実験手法SOLUTION NMR
主引用文献Solution NMR Structure of De novo designed protein, Northeast Structural Genomics Consortium (NESG) Target OR459
To be Published
3GEQ
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STRUCTURAL BASIS FOR THE CHEMICAL RESCUE OF SRC KINASE ACTIVITY
分子名称:Proto-oncogene tyrosine-protein kinase Src, 1-TERT-BUTYL-3-(4-CHLORO-PHENYL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-YLAMINE
著者Muratore, K.E., Seeliger, M.A., Wang, Z., Fomina, D., Neiswinger, J., Havranek, J.J., Baker, D., Kuriyan, J., Cole, P.A.
登録日2009-02-25
公開日2009-04-28
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (2.2 Å)
主引用文献Comparative analysis of mutant tyrosine kinase chemical rescue.
Biochemistry, 48, 2009
3NNG
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CRYSTAL STRUCTURE OF THE F5/8 TYPE C DOMAIN OF Q5LFR2_BACFN PROTEIN FROM BACTEROIDES FRAGILIS. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET BFR258E
分子名称:uncharacterized protein, CALCIUM ION
著者Vorobiev, S., Su, M., Dimaio, F., Baker, D., Seetharaman, J., Janjua, J., Xiao, R., Ciccosanti, C., Foote, E.L., Lee, D., Everett, J.K., Nair, R., Acton, T.B., Rost, B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)
登録日2010-06-23
公開日2010-08-18
最終更新日2011-07-13
実験手法X-RAY DIFFRACTION (2.177 Å)
主引用文献Crystal structure of the F5/8 type C domain of Q5LFR2_BACFN protein from Bacteroides fragilis.
To be Published
3NPU
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OPTIMIZATION OF THE IN SILICO DESIGNED KEMP ELIMINASE KE70 BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION
分子名称:deoxyribose phosphate aldolase
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (2.25 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011
3NPV
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OPTIMIZATION OF THE IN SILICO DESIGNED KEMP ELIMINASE KE70 BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION
分子名称:deoxyribose phosphate aldolase
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (1.48 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011
3NPW
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IN SILICO DESIGNED OF AN IMPROVED KEMP ELIMINASE KE70 MUTANT BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION
分子名称:deoxyribose phosphate aldolase
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (2.14 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011
3NPX
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OPTIMIZATION OF THE IN SILICO DESIGNED KEMP ELIMINASE KE70 BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION
分子名称:deoxyribose phosphate aldolase
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (1.79 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011
3NQ2
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OPTIMIZATION OF THE IN SILICO DESIGNED KEMP ELIMINASE KE70 BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION R2 3/5G
分子名称:deoxyribose phosphate aldolase, IMIDAZOLE
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (2.02 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011
3NQ8
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OPTIMIZATION OF THE IN SILICO DESIGNED KEMP ELIMINASE KE70 BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION R4 8/5A
分子名称:deoxyribose phosphate aldolase, NITRATE ION, BENZAMIDINE
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (1.4 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011
3NQV
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OPTIMIZATION OF THE IN SILICO DESIGNED KEMP ELIMINASE KE70 BY COMPUTATIONAL DESIGN AND DIRECTED EVOLUTION R5 7/4A
分子名称:deoxyribose phosphate aldolase, BENZAMIDINE
著者Khersonsky, O., Rothlisberge, D., Wollacott, A.M., Dym, O., Baker, D., Tawfik, D.S., Israel Structural Proteomics Center (ISPC)
登録日2010-06-29
公開日2011-02-09
最終更新日2014-03-19
実験手法X-RAY DIFFRACTION (1.7 Å)
主引用文献Optimization of the in-silico-designed kemp eliminase KE70 by computational design and directed evolution
J.Mol.Biol., 407, 2011