Author results

2VLO
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K97A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9
Descriptor:COLICIN-E9 IMMUNITY PROTEIN, COLICIN E9, SULFATE ION
Authors:Keeble, A.H., Joachimiak, L.A., Mate, M.J., Meenan, N., Kirkpatrick, N., Baker, D., Kleanthous, C.
Deposit date:2008-01-15
Release date:2008-05-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Experimental and Computational Analyses of the Energetic Basis for Dual Recognition of Immunity Proteins by Colicin Endonucleases.
J.Mol.Biol., 379, 2008
2VLP
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R54A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9
Descriptor:COLICIN-E9 IMMUNITY PROTEIN, COLICIN E9, MALONIC ACID
Authors:Keeble, A.H., Joachimiak, L.A., Mate, M.J., Meenan, N., Kirkpatrick, N., Baker, D., Kleanthous, C.
Deposit date:2008-01-15
Release date:2008-05-20
Last modified:2015-04-22
Method:X-RAY DIFFRACTION (2 Å)
Cite:Experimental and Computational Analyses of the Energetic Basis for Dual Recognition of Immunity Proteins by Colicin Endonucleases.
J.Mol.Biol., 379, 2008
2VLQ
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F86A MUTANT OF E9 DNASE DOMAIN IN COMPLEX WITH IM9
Descriptor:COLICIN-E9 IMMUNITY PROTEIN, COLICIN E9, MALONIC ACID
Authors:Keeble, A.H., Joachimiak, L.A., Mate, M.J., Meenan, N., Kirkpatrick, N., Baker, D., Kleanthous, C.
Deposit date:2008-01-15
Release date:2008-05-20
Last modified:2015-04-22
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Experimental and Computational Analyses of the Energetic Basis for Dual Recognition of Immunity Proteins by Colicin Endonucleases.
J.Mol.Biol., 379, 2008
2WPT
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THE CRYSTAL STRUCTURE OF IM2 IN COMPLEX WITH COLICIN E9 DNASE
Descriptor:COLICIN-E2 IMMUNITY PROTEIN, COLICIN-E9, GLYCEROL, ...
Authors:Meenan, N.A., Sharma, A., Fleishman, S.J., Macdonald, C.J., Boetzel, R., Moore, G.R., Baker, D., Kleanthous, C.
Deposit date:2009-08-10
Release date:2010-06-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.78 Å)
Cite:The Structural and Energetic Basis for High Selectivity in a High-Affinity Protein-Protein Interaction.
Proc.Natl.Acad.Sci.USA, 107, 2010
3E0L
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COMPUTATIONALLY DESIGNED AMMELIDE DEAMINASE
Descriptor:Guanine deaminase, ZINC ION
Authors:Murphy, P.M., Bolduc, J.M., Gallaher, J.L., Stoddard, B.L., Baker, D.
Deposit date:2008-07-31
Release date:2009-03-03
Last modified:2017-10-25
Method:X-RAY DIFFRACTION (2.37 Å)
Cite:Alteration of enzyme specificity by computational loop remodeling and design.
Proc.Natl.Acad.Sci.USA, 106, 2009
3J02
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LIDLESS D386A MM-CPN IN THE PRE-HYDROLYSIS ATP-BOUND STATE
Descriptor:Lidless D386A Mm-cpn variant
Authors:Zhang, J., Ma, B., DiMaio, F., Douglas, N.R., Joachimiak, L., Baker, D., Frydman, J., Levitt, M., Chiu, W.
Deposit date:2011-02-10
Release date:2011-05-18
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (8 Å)
Cite:Cryo-EM structure of a group II chaperonin in the prehydrolysis ATP-bound state leading to lid closure.
Structure, 19, 2011
3J1V
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A REFINED MODEL OF THE PROTOTYPICAL SALMONELLA TYPHIMURIUM T3SS BASAL BODY REVEALS THE MOLECULAR BASIS FOR ITS ASSEMBLY
Descriptor:Protein InvG
Authors:Sgourakis, N.G., Bergeron, J.R.C., Strynadka, N.J.C., Baker, D.
Deposit date:2012-07-08
Release date:2013-05-22
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (11.7 Å)
Cite:A Refined Model of the Prototypical Salmonella SPI-1 T3SS Basal Body Reveals the Molecular Basis for Its Assembly.
Plos Pathog., 9, 2013
3J1W
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A REFINED MODEL OF THE PROTOTYPICAL SALMONELLA TYPHIMURIUM T3SS BASAL BODY REVEALS THE MOLECULAR BASIS FOR ITS ASSEMBLY
Descriptor:Protein PrgH
Authors:Sgourakis, N.G., Worrall, L.J., Strynadka, N.C.J., Baker, D.
Deposit date:2012-07-10
Release date:2013-05-22
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (11.7 Å)
Cite:A Refined Model of the Prototypical Salmonella SPI-1 T3SS Basal Body Reveals the Molecular Basis for Its Assembly.
Plos Pathog., 9, 2013
3J1X
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A REFINED MODEL OF THE PROTOTYPICAL SALMONELLA TYPHIMURIUM T3SS BASAL BODY REVEALS THE MOLECULAR BASIS FOR ITS ASSEMBLY
Descriptor:Protein PrgH
Authors:Sgourakis, N.G., Bergeron, J.R.C., Worrall, L.J., Strynadka, N.C.J., Baker, D.
Deposit date:2012-07-10
Release date:2013-05-22
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (11.7 Å)
Cite:A Refined Model of the Prototypical Salmonella SPI-1 T3SS Basal Body Reveals the Molecular Basis for Its Assembly.
Plos Pathog., 9, 2013
3J3X
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INDEPENDENT RECONSTRUCTION OF MM-CPN CRYO-EM DENSITY MAP FROM HALF DATASET IN THE CLOSED STATE (TRAINING MAP)
Descriptor:Chaperonin
Authors:DiMaio, F., Zhang, J., Chiu, W., Baker, D.
Deposit date:2013-05-02
Release date:2013-05-29
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (4.3 Å)
Cite:Cryo-EM model validation using independent map reconstructions.
Protein Sci., 22, 2013
3J6E
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ENERGY MINIMIZED AVERAGE STRUCTURE OF MICROTUBULES STABILIZED BY GMPCPP
Descriptor:Tubulin alpha-1A chain, Tubulin beta chain, GUANOSINE-5'-TRIPHOSPHATE, ...
Authors:Alushin, G.M., Lander, G.C., Kellogg, E.H., Zhang, R., Baker, D., Nogales, E.
Deposit date:2014-02-18
Release date:2014-06-04
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (4.7 Å)
Cite:High-Resolution Microtubule Structures Reveal the Structural Transitions in alpha beta-Tubulin upon GTP Hydrolysis.
Cell(Cambridge,Mass.), 157, 2014
3J6F
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MINIMIZED AVERAGE STRUCTURE OF GDP-BOUND DYNAMIC MICROTUBULES
Descriptor:Tubulin alpha-1A chain, Tubulin beta chain, GUANOSINE-5'-TRIPHOSPHATE, ...
Authors:Alushin, G.M., Lander, G.C., Kellogg, E.H., Zhang, R., Baker, D., Nogales, E.
Deposit date:2014-02-19
Release date:2014-06-04
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (4.9 Å)
Cite:High-Resolution Microtubule Structures Reveal the Structural Transitions in alpha beta-Tubulin upon GTP Hydrolysis.
Cell(Cambridge,Mass.), 157, 2014
3J6G
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MINIMIZED AVERAGE STRUCTURE OF MICROTUBULES STABILIZED BY TAXOL
Descriptor:Tubulin alpha-1A chain, Tubulin beta chain, GUANOSINE-5'-TRIPHOSPHATE, ...
Authors:Alushin, G.M., Lander, G.C., Kellogg, E.H., Zhang, R., Baker, D., Nogales, E.
Deposit date:2014-02-19
Release date:2014-06-04
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (5.5 Å)
Cite:High-Resolution Microtubule Structures Reveal the Structural Transitions in alpha beta-Tubulin upon GTP Hydrolysis.
Cell(Cambridge,Mass.), 157, 2014
3J89
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STRUCTURAL PLASTICITY OF HELICAL NANOTUBES BASED ON COILED-COIL ASSEMBLIES
Descriptor:synthetic peptide
Authors:Egelman, E.H., Xu, C., DiMaio, F., Magnotti, E., Modlin, C., Yu, X., Wright, E., Baker, D., Conticello, V.P.
Deposit date:2014-10-07
Release date:2015-02-11
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (3.6 Å)
Cite:Structural plasticity of helical nanotubes based on coiled-coil assemblies.
Structure, 23, 2015
3J9G
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ATOMIC MODEL OF THE VIPA/VIPB, THE TYPE SIX SECRETION SYSTEM CONTRACTILE SHEATH OF VIBRIO CHOLERAE FROM CRYO-EM
Descriptor:VipA, VipB
Authors:Kudryashev, M., Wang, R.Y.-R., Brackmann, M., Scherer, S., Maier, T., Baker, D., DiMaio, F., Stahlberg, H., Egelman, E.H., Basler, M.
Deposit date:2015-01-16
Release date:2015-03-11
Last modified:2018-07-18
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:Structure of the Type VI Secretion System Contractile Sheath.
Cell(Cambridge,Mass.), 160, 2015
3JVE
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CRYSTAL STRUCTURE OF THE SIXTH BRCT DOMAIN OF TOPBP1
Descriptor:DNA topoisomerase 2-binding protein 1
Authors:Leung, C.C., Kellogg, E., Baker, D., Glover, J.N.M.
Deposit date:2009-09-16
Release date:2010-01-19
Last modified:2017-11-01
Method:X-RAY DIFFRACTION (1.34 Å)
Cite:Insights from the crystal structure of the sixth BRCT domain of topoisomerase IIbeta binding protein 1.
Protein Sci., 19, 2010
3LES
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2F5 EPITOPE SCAFFOLD ES2
Descriptor:RNA polymerase sigma factor, SULFATE ION
Authors:Ofek, G., Guenaga, F.J., Schief, W.R., Skinner, J., Wyatt, R., Baker, D., Kwong, P.D.
Deposit date:2010-01-15
Release date:2010-09-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.77 Å)
Cite:Elicitation of structure-specific antibodies by epitope scaffolds.
Proc.Natl.Acad.Sci.USA, 107, 2010
3LEV
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HIV-1 ANTIBODY 2F5 IN COMPLEX WITH EPITOPE SCAFFOLD ES2
Descriptor:RNA polymerase sigma factor, 2F5 ANTIBODY LIGHT CHAIN, 2F5 ANTIBODY HEAVY CHAIN, ...
Authors:Ofek, G., Guenaga, F.J., Schief, W.R., Skinner, J., Baker, D., Wyatt, R., Kwong, P.D.
Deposit date:2010-01-15
Release date:2010-09-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Elicitation of structure-specific antibodies by epitope scaffolds.
Proc.Natl.Acad.Sci.USA, 107, 2010
3LEX
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2F5 EPITOPE SCAFFOLD ELICITED ANTI-HIV-1 MONOCLONAL ANTIBODY 11F10 IN COMPLEX WITH HIV-1 GP41
Descriptor:11f10 Antibody Heavy Chain, 11f10 Antibody Light Chain, Envelope glycoprotein gp41
Authors:Ofek, G., Guenaga, F.J., Schief, W.R., Skinner, J., Baker, D., Wyatt, R., Kwong, P.D.
Deposit date:2010-01-15
Release date:2010-09-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.97 Å)
Cite:Elicitation of structure-specific antibodies by epitope scaffolds.
Proc.Natl.Acad.Sci.USA, 107, 2010
3LEY
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2F5 EPITOPE SCAFFOLD ELICITED ANTI-HIV-1 MONOCLONAL ANTIBODY 6A7 IN COMPLEX WITH HIV-1 GP41
Descriptor:6a7 Antibody Heavy Chain, 6a7 Antibody Light Chain, Envelope glycoprotein gp41, ...
Authors:Ofek, G., Guenaga, F.J., Schief, W.R., Skinner, J., Baker, D., Wyatt, R., Kwong, P.D.
Deposit date:2010-01-15
Release date:2010-09-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.99 Å)
Cite:Elicitation of structure-specific antibodies by epitope scaffolds.
Proc.Natl.Acad.Sci.USA, 107, 2010
3RFN
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EPITOPE BACKBONE GRAFTING BY COMPUTATIONAL DESIGN FOR IMPROVED PRESENTATION OF LINEAR EPITOPES ON SCAFFOLD PROTEINS
Descriptor:BB_1wnu_001, ZINC ION
Authors:Azoitei, M.L., Ban, Y.A., Julien, J.P., Bryson, S., Schroeter, A., Kalyuzhniy, O., Porter, J.R., Adachi, Y., Baker, D., Szabo, E., Pai, E.F., Schief, W.R.
Deposit date:2011-04-06
Release date:2011-11-09
Last modified:2017-07-26
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3RHU
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EPITOPE BACKBONE GRAFTING BY COMPUTATIONAL DESIGN FOR IMPROVED PRESENTATION OF LINEAR EPITOPES ON SCAFFOLD PROTEINS
Descriptor:SC_1wnu
Authors:Azoitei, M.L., Ban, Y.A., Julien, J.P., Bryson, S., Schroeter, A., Kalyuzhniy, O., Porter, J.R., Adachi, Y., Baker, D., Szabo, E., Pai, E.F., Schief, W.R.
Deposit date:2011-04-12
Release date:2011-11-09
Last modified:2017-07-26
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3RI0
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EPITOPE BACKBONE GRAFTING BY COMPUTATIONAL DESIGN FOR IMPROVED PRESENTATION OF LINEAR EPITOPES ON SCAFFOLD PROTEINS
Descriptor:BB_2cx5_001, GLYCEROL, SULFATE ION
Authors:Azoitei, M.L., Ban, Y.A., Julien, J.P., Bryson, S., Schroeter, A., Kalyuzhniy, O., Porter, J.R., Adachi, Y., Baker, D., Szabo, E., Pai, E.F., Schief, W.R.
Deposit date:2011-04-12
Release date:2011-11-09
Last modified:2017-07-26
Method:X-RAY DIFFRACTION (2.25 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3RIJ
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EPITOPE BACKBONE GRAFTING BY COMPUTATIONAL DESIGN FOR IMPROVED PRESENTATION OF LINEAR EPITOPES ON SCAFFOLD PROTEINS
Descriptor:SC_2cx5, GLYCEROL
Authors:Azoitei, M.L., Ban, Y.A., Julien, J.P., Bryson, S., Schroeter, A., Kalyuzhniy, O., Porter, J.R., Adachi, Y., Baker, D., Szabo, E., Pai, E.F., Schief, W.R.
Deposit date:2011-04-13
Release date:2011-11-09
Last modified:2017-07-26
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Computational design of high-affinity epitope scaffolds by backbone grafting of a linear epitope.
J.Mol.Biol., 415, 2012
3SQF
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CRYSTAL STRUCTURE OF MONOMERIC M-PMV RETROVIRAL PROTEASE
Descriptor:Protease
Authors:Jaskolski, M., Kazmierczyk, M., Gilski, M., Krzywda, S., Pichova, I., Zabranska, H., Khatib, F., DiMaio, F., Cooper, S., Thompson, J., Popovic, Z., Baker, D., Group, Foldit Contenders
Deposit date:2011-07-05
Release date:2011-09-21
Last modified:2012-03-21
Method:X-RAY DIFFRACTION (1.6324 Å)
Cite:Crystal structure of a monomeric retroviral protease solved by protein folding game players.
Nat.Struct.Mol.Biol., 18, 2011