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jwm protein_design [68 articles]

最近 jwm さんのライブラリに追加された論文の中から タグ protein_design. You can also see everyone's protein_design.
  • Tryptophan-Accelerated Electron Flow Through Proteins
    Science, Vol. 320, No. 5884. (27 June 2008), pp. 1760-1762.
    by Crystal Shih, Anna K Museth, Malin Abrahamsson, Ana M Blanco-Rodriguez, Angel J Di Bilio, Jawahar Sudhamsu, Brian R Crane, Kate L Ronayne, Mike Towrie, Antonin Vlcek, John H Richards, Jay R Winkler, Harry B Gray
    posted to protein_design electron_tunneling azurin by jwm on 2008-06-27 08:20:00 as **
  • Rationally designed mutations convert de novo amyloid-like fibrils into monomeric beta-sheet proteins.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 99, No. 5. (5 March 2002), pp. 2760-2765.
    by W Wang, MH Hecht
    posted to protein_engineering protein_design beta_solenoid beta_helix by jwm on 2008-06-20 13:31:03 as **
  • Synthetic chemistry: Making a natural fuel cell
    Nature, Vol. 433, No. 7026. (10 February 2005), pp. 589-591.
    by Marcetta Y Darensbourg
    posted to protein_design hydrogenase by jwm on 2008-06-06 13:21:08 as **
  • Synthetic hydrogenases: incorporation of an iron carbonyl thiolate into a designed peptide.
    Journal of the American Chemical Society, Vol. 129, No. 48. (5 December 2007), pp. 14844-14845.
    by AK Jones, BR Lichtenstein, A Dutta, G Gordon, PL Dutton
    posted to protein_design maquette hydrogenase by jwm on 2008-05-28 13:27:50 as **
  • Converting a maltose receptor into a nascent binuclear copper oxygenase by computational design.
    Biochemistry, Vol. 41, No. 9. (5 March 2002), pp. 3262-3269.
    by DE Benson, AE Haddy, HW Hellinga
    posted to protein_design by jwm on 2008-04-27 15:26:14 as **
  • Rational design of nascent metalloenzymes.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 97, No. 12. (6 June 2000), pp. 6292-6297.
    by DE Benson, MS Wisz, HW Hellinga
    posted to protein_design by jwm on 2008-04-27 15:25:48 as **
  • A computer vision based technique for 3-D sequence-independent structural comparison of proteins.
    Protein engineering, Vol. 6, No. 3. (April 1993), pp. 279-288.
    by O Bachar, D Fischer, R Nussinov, H Wolfson
    posted to geometric_hashing protein_design by jwm on 2008-04-11 18:34:35 as **
  • Detection of protein three-dimensional side-chain patterns: new examples of convergent evolution
    Journal of Molecular Biology, Vol. 279, No. 5. (26 June 1998), pp. 1211-1227.
    by Robert B Russell
    posted to protein_design by jwm on 2008-04-08 10:31:31 as ** along with 2 people shadowman Evangelia
  • Metal search: a computer program that helps design tetrahedral metal-binding sites.
    Proteins, Vol. 23, No. 2. (October 1995), pp. 256-263.
    by ND Clarke, SM Yuan
    posted to protein_design by jwm on 2008-04-08 10:30:25 as **
  • De Novo Computational Design of Retro-Aldol Enzymes
    Science, Vol. 319, No. 5868. (7 March 2008), pp. 1387-1391.
    by Lin Jiang, Eric A Althoff, Fernando R Clemente, Lindsey Doyle, Daniela Rothlisberger, Alexandre Zanghellini, Jasmine L Gallaher, Jamie L Betker, Fujie Tanaka, Carlos F Barbas, Donald Hilvert, Kendall N Houk, Barry L Stoddard, David Baker
    posted to protein_design rosetta by jwm on 2008-04-07 13:38:39 as ** along with 11 people and 3 groups joseph_x_zhou ucbcjbm barry aalibes aprasad dgront zwang sobolevnrm davidlott msuarezdiez scienbox McCammon structural_bioinformatics baker-group
  • Kemp elimination catalysts by computational enzyme design
    Nature (19 March 2008)
    by Daniela Röthlisberger, Olga Khersonsky, Andrew M Wollacott, Lin Jiang, Jason Dechancie, Jamie Betker, Jasmine L Gallaher, Eric A Althoff, Alexandre Zanghellini, Orly Dym, Shira Albeck, Kendall N Houk, Dan S Tawfik, David Baker
    posted to protein_design rosetta by jwm on 2008-04-07 13:37:16 as ** along with 5 people and 1 group sobolevnrm austin neils cactus msuarezdiez baker-group
  • Conversion of phospholamban into a soluble pentameric helical bundle.
    Biochemistry, Vol. 40, No. 22. (5 June 2001), pp. 6636-6645.
    by H Li, MJ Cocco, TA Steitz, DM Engelman
    posted to membrane2soluble protein_design by jwm on 2007-12-06 10:51:23 as **
  • Rational design of 'water-soluble' bacteriorhodopsin variants.
    Protein Eng, Vol. 15, No. 6. (June 2002), pp. 485-492.
    by K Mitra, TA Steitz, DM Engelman
    posted to bacteriorhodopsin membrane2soluble protein_design by jwm on 2007-12-06 10:51:06 as **
  • Computational design of a water-soluble analog of phospholamban.
    Protein Sci, Vol. 12, No. 2. (February 2003), pp. 337-348.
    by AM Slovic, CM Summa, JD Lear, WF DeGrado
    posted to membrane2soluble protein_design by jwm on 2007-12-06 10:50:44 as **
  • De novo design of a pentameric coiled-coil: decoding the motif for tetramer versus pentamer formation in water-soluble phospholamban
    Journal of Peptide Research, Vol. 65, No. 3. (March 2005), pp. 312-321.
    by AM Slovic, JD Lear, WF Degrado
    posted to membrane2soluble protein_design by jwm on 2007-12-06 10:50:30 as **
  • X-ray structure of a water-soluble analog of the membrane protein phospholamban: sequence determinants defining the topology of tetrameric and pentameric coiled coils.
    J Mol Biol, Vol. 348, No. 3. (6 May 2005), pp. 777-787.
    by AM Slovic, SE Stayrook, B North, WF Degrado
    posted to membrane2soluble protein_design by jwm on 2007-12-06 10:50:14 as **
  • Redesigning an integral membrane K+ channel into a soluble protein.
    Protein Eng Des Sel, Vol. 18, No. 2. (February 2005), pp. 79-84.
    by TP Roosild, S Choe
    posted to membrane2soluble protein_design by jwm on 2007-12-06 10:39:52 as **
  • Computational design of water-soluble analogues of the potassium channel KcsA.
    Proc Natl Acad Sci U S A, Vol. 101, No. 7. (17 February 2004), pp. 1828-1833.
    by AM Slovic, H Kono, JD Lear, JG Saven, WF DeGrado
    posted to membrane2soluble protein_design by jwm on 2007-12-06 10:38:11 as **
  • De novo design of a single-chain diphenylporphyrin metalloprotein.
    J Am Chem Soc, Vol. 129, No. 35. (5 September 2007), pp. 10732-10740.
    by GM Bender, A Lehmann, H Zou, H Cheng, HC Fry, D Engel, MJ Therien, JK Blasie, H Roder, JG Saven, WF DeGrado
    posted to de_novo_protein met metalloprotein protein_design by jwm on 2007-12-04 08:39:31 as **
  • De novo proteins from designed combinatorial libraries
    Protein Sci, Vol. 13, No. 7. (1 July 2004), pp. 1711-1723.
    by Michael H Hecht, Aditi Das, Abigail Go, Luke H Bradley, Yinan Wei
    posted to de_novo_protein protein_design by jwm on 2007-11-30 17:24:32 as **
  • Getting specificity from simplicity in putative proteins from the prebiotic Earth
    Proceedings of the National Academy of Sciences, Vol. 104, No. 38. (18 September 2007), pp. 14941-14946.
    by Lopez, David A Bateman, Sylvia Ho, Carlos Gonzalez, Avijit Chakrabartty, Douglas V Laurents
    posted to de_novo_protein origin_of_life protein_design by jwm on 2007-11-30 17:24:25 as **
  • A protein carboxylate coordinated oxo-centered tri-nuclear iron complex with possible implications for ferritin mineralization.
    FEBS Lett, Vol. 567, No. 2-3. (4 June 2004), pp. 179-182.
    by M Högbom, P Nordlund
    posted to ferritin protein_design ribonucleotide_reductase by jwm on 2007-11-27 11:13:15 as **
  • An approach to crystallizing proteins by synthetic symmetrization.
    Proc Natl Acad Sci U S A, Vol. 103, No. 44. (31 October 2006), pp. 16230-16235.
    by DR Banatao, D Cascio, CS Crowley, MR Fleissner, HL Tienson, TO Yeates
    posted to protein_crystallization protein_design protein_engineering by jwm on 2007-11-26 13:33:00 as **
  • Nucleoprotein-based nanoscale assembly.
    Proc Natl Acad Sci U S A, Vol. 94, No. 6. (18 March 1997), pp. 2162-2167.
    by SS Smith, L Niu, DJ Baker, JA Wendel, SE Kane, DS Joy
    posted to nanoparticle protein_design protein_engineering by jwm on 2007-11-26 10:28:40 as **
  • Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions.
    J Mol Biol, Vol. 268, No. 1. (25 April 1997), pp. 209-225.
    by KT Simons, C Kooperberg, E Huang, D Baker
    posted to protein_design rosetta by jwm on 2007-11-26 10:25:17 as ** along with 7 people and 2 groups joule ana vavi wouterboomsma j3xucite hmk mijam structural_bioinformatics Bioinformatics
  • Three-dimensional structures and contexts associated with recurrent amino acid sequence patterns.
    Protein Sci, Vol. 6, No. 7. (July 1997), pp. 1587-1590.
    by KF Han, C Bystroff, D Baker
    posted to protein_design rosetta by jwm on 2007-11-26 10:25:01 as **
  • Functional rapidly folding proteins from simplified amino acid sequences.
    Nat Struct Biol, Vol. 4, No. 10. (October 1997), pp. 805-809.
    by DS Riddle, JV Santiago, ST Bray-Hall, N Doshi, VP Grantcharova, Q Yi, D Baker
    posted to protein_design rosetta by jwm on 2007-11-26 10:24:40 as **
  • The backrub motion: how protein backbone shrugs when a sidechain dances.
    Structure, Vol. 14, No. 2. (February 2006), pp. 265-274.
    by IW Davis, WB Arendall, DC Richardson, JS Richardson
    posted to protein_design rosetta validation by jwm on 2007-11-12 17:21:19 as ** along with 2 people and 2 groups ana nigham structural_bioinformatics Bioinformatics
  • A simple physical model for binding energy hot spots in protein-protein complexes.
    Proc Natl Acad Sci U S A, Vol. 99, No. 22. (29 October 2002), pp. 14116-14121.
    by T Kortemme, D Baker
    posted to protein_design rosetta by jwm on 2007-11-09 13:36:20 as ** along with 5 people and 1 group skoddet hmk lna bicko cjeans Nielsen group
  • Design, activity, and structure of a highly specific artificial endonuclease.
    Mol Cell, Vol. 10, No. 4. (October 2002), pp. 895-905.
    by BS Chevalier, T Kortemme, MS Chadsey, D Baker, RJ Monnat, BL Stoddard
    posted to protein_design rosetta by jwm on 2007-11-09 13:36:06 as **
  • Mis-translation of a Computationally Designed Protein Yields an Exceptionally Stable Homodimer: Implications for Protein Engineering and Evolution
    Journal of Molecular Biology, Vol. 362, No. 5. (6 October 2006), pp. 1004-1024.
    by Gautam Dantas, Alexander L Watters, Bradley M Lunde, Ziad M Eletr, Nancy G Isern, Toby Roseman, Jan Lipfert, Sebastian Doniach, Martin Tompa, Brian Kuhlman, Barry L Stoddard, Gabriele Varani, David Baker
    posted to protein_design rosetta by jwm on 2007-11-09 09:16:48 as ** along with 1 person lundbra
  • High-resolution structural validation of the computational redesign of human U1A protein.
    Structure, Vol. 14, No. 5. (May 2006), pp. 847-856.
    by N Dobson, G Dantas, D Baker, G Varani
    posted to protein_design protein_redesign rosetta by jwm on 2007-11-09 09:15:49 as **
  • High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design.
    J Mol Biol (2 December 2006)
    by Gautam Dantas, Colin Corrent, Steve L L Reichow, James J J Havranek, Ziad M M Eletr, Nancy G G Isern, Brian Kuhlman, Gabriele Varani, Ethan A A Merritt, David Baker
    posted to protein_design protein_redesign rosetta by jwm on 2007-11-09 09:15:23 as ** along with 1 person kentsis
  • A large scale test of computational protein design: folding and stability of nine completely redesigned globular proteins.
    J Mol Biol, Vol. 332, No. 2. (12 September 2003), pp. 449-460.
    by G Dantas, B Kuhlman, D Callender, M Wong, D Baker
    posted to protein_design protein_structure_prediction rosetta by jwm on 2007-11-09 09:13:45 as ** along with 2 people leelarcombe bethbromley
  • De novo prediction of three-dimensional structures for major protein families.
    J Mol Biol, Vol. 322, No. 1. (6 September 2002), pp. 65-78.
    by R Bonneau, CE Strauss, CA Rohl, D Chivian, P Bradley, L Malmström, T Robertson, D Baker
    posted to protein_design protein_structure_prediction rosetta by jwm on 2007-11-08 11:41:25 as ** along with 1 person mijam
  • Light-induced reduction of bovine adrenodoxin via the covalently bound ruthenium(II) bipyridyl complex: intramolecular electron transfer and crystal structure.
    Biochemistry, Vol. 45, No. 3. (24 January 2006), pp. 709-718.
    by A Halavaty, JJ Müller, J Contzen, C Jung, F Hannemann, R Bernhardt, M Galander, F Lendzian, U Heinemann
    posted to artificial_photosynthesis protein_design ruthenium by jwm on 2007-11-07 20:24:02 as **
  • Spectroscopy and reactivity of a photogenerated tryptophan radical in a structurally defined protein environment.
    J Am Chem Soc, Vol. 125, No. 47. (26 November 2003), pp. 14220-14221.
    by JE Miller, C Grădinaru, BR Crane, AJ Di Bilio, WA Wehbi, S Un, JR Winkler, HB Gray
    posted to artificial_photosynthesis protein_design by jwm on 2007-11-07 20:06:42 as **
  • Design of a novel globular protein fold with atomic-level accuracy.
    Science, Vol. 302, No. 5649. (21 November 2003), pp. 1364-1368.
    by B Kuhlman, G Dantas, GC Ireton, G Varani, BL Stoddard, D Baker
    posted to protein_denovo_design protein_design protein_engineering rosetta by jwm on 2007-11-07 12:00:44 as ** along with 5 people ca3295 chad_davis hmk heymiki kevinchannon
  • Structures of ruthenium-modified Pseudomonas aeruginosa azurin and [Ru(2,2'-bipyridine)2(imidazole)2]SO4 x 10H2O.
    Acta Crystallogr D Biol Crystallogr, Vol. 55, No. Pt 2. (February 1999), pp. 379-385.
    by S Faham, MW Day, WB Connick, BR Crane, AJ Di Bilio, WP Schaefer, DC Rees, HB Gray
    posted to artificial_photosynthesis protein_design by jwm on 2007-10-19 20:08:24 as **
  • Photoactive peptides for light-initiated tyrosyl radical generation and transport into ribonucleotide reductase.
    J Am Chem Soc, Vol. 129, No. 27. (11 July 2007), pp. 8500-8509.
    by SY Reece, MR Seyedsayamdost, J Stubbe, DG Nocera
    posted to artificial_photosynthesis protein_design by jwm on 2007-10-19 14:22:22 as **
  • Construction of new ligand binding sites in proteins of known structure. I. Computer-aided modeling of sites with pre-defined geometry.
    J Mol Biol, Vol. 222, No. 3. (5 December 1991), pp. 763-785.
    by HW Hellinga, FM Richards
    posted to protein_design xtal_software by jwm on 2007-10-11 20:26:10 as **
  • The construction of metal centers in proteins by rational design.
    Fold Des, Vol. 3, No. 1. (1998)
    by HW Hellinga
    posted to protein_design by jwm on 2007-10-11 19:54:34 as **
  • The HP-1 maquette: from an apoprotein structure to a structured hemoprotein designed to promote redox-coupled proton exchange.
    Proc Natl Acad Sci U S A, Vol. 101, No. 15. (13 April 2004), pp. 5536-5541.
    by SS Huang, RL Koder, M Lewis, AJ Wand, PL Dutton
    posted to bioenergy maquette protein_design by jwm on 2007-10-07 16:42:42 as **
  • Protein engineering of cytochrome b562 for quinone binding and light-induced electron transfer.
    Proc Natl Acad Sci U S A, Vol. 101, No. 51. (21 December 2004), pp. 17675-17680.
    by S Hay, BB Wallace, TA Smith, KP Ghiggino, T Wydrzynski
    posted to bioenergy protein_design protein_engineering by jwm on 2007-10-07 16:40:16 as **
  • Different mechanisms of the binding of soluble electron donors to the photosynthetic reaction center of Rubrivivax gelatinosus and Blastochloris viridis.
    J Biol Chem, Vol. 276, No. 26. (29 June 2001), pp. 24108-24112.
    by A Osyczka, KV Nagashima, S Sogabe, K Miki, K Shimada, K Matsuura
    posted to cytochrome_c protein_design reaction_centre by jwm on 2007-10-07 16:33:50 as **
  • Designing redox metalloproteins from bottom-up and top-down perspectives.
    Curr Opin Struct Biol, Vol. 13, No. 4. (August 2003), pp. 490-499.
    by PD Barker
    posted to protein_design by jwm on 2007-10-07 15:59:12 as **
  • Response of a designed metalloprotein to changes in metal ion coordination, exogenous ligands, and active site volume determined by X-ray crystallography.
    J Am Chem Soc, Vol. 127, No. 49. (14 December 2005), pp. 17266-17276.
    by S Geremia, L Di Costanzo, L Randaccio, DE Engel, A Lombardi, F Nastri, WF DeGrado
    posted to protein_design by jwm on 2007-09-03 15:59:25 as ** along with 2 groups Radiation_Damage Stressosome
  • Toward the de novo design of a catalytically active helix bundle: a substrate-accessible carboxylate-bridged dinuclear metal center.
    J Am Chem Soc, Vol. 123, No. 51. (26 December 2001), pp. 12749-12757.
    by L Di Costanzo, H Wade, S Geremia, L Randaccio, V Pavone, WF DeGrado, A Lombardi
    posted to de_novo_protein mn protein_design by jwm on 2007-03-09 11:09:36 as ** along with 2 groups Radiation_Damage Stressosome
  • Protein engineering 20 years on.
    Nat Rev Mol Cell Biol, Vol. 3, No. 12. (December 2002), pp. 964-970.
    by JA Brannigan, AJ Wilkinson
    posted to protein_design by jwm on 2007-02-05 11:10:23 as ** along with 2 groups Radiation_Damage Stressosome
  • Engineering of beta-propeller protein scaffolds by multiple gene duplication and fusion of an idealized WD repeat.
    Biomol Eng, Vol. 23, No. 4. (September 2006), pp. 185-194.
    by M Nikkhah, Z Jawad-Alami, M Demydchuk, D Ribbons, M Paoli
    posted to beta_propeller protein_design by jwm on 2006-09-07 16:58:49 as ** along with 2 groups Radiation_Damage Stressosome
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