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タグ: protein_engineering [50 articles]

Recent papers classified by the tag protein_engineering.
  • Computational Design of Four-Helix Bundle Proteins That Bind Nonbiological Cofactors
    Biotechnol. Prog., Vol. 24, No. 1. (1 February 2008), pp. 74-79.
    by A Lehmann, JG Saven
    posted to protein_engineering by sobolevnrm on 2008-02-19 12:32:26 as read along with 1 group baker-group
  • 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_engineering by sobolevnrm on 2008-04-18 11:13:25 as read along with 10 people and 3 groups ucbcjbm barry aalibes jwm aprasad dgront zwang davidlott msuarezdiez scienbox McCammon structural_bioinformatics baker-group
  • Engineering Protein Allostery: 1.05 Å Resolution Structure and Enzymatic Properties of a Na+-activated Trypsin
    Journal of Molecular Biology, Vol. 378, No. 3. (2 May 2008), pp. 666-672.
    by Michael J Page, Christopher J Carrell, Enrico Di Cera
    posted to thrombin protein-ligand_interactions protein_engineering allostery by sobolevnrm on 2008-05-03 12:32:51 as read along with 1 group 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 structure_prediction protein_engineering by sobolevnrm on 2008-06-27 12:04:48 as read along with 5 people and 1 group austin neils cactus jwm msuarezdiez baker-group
  • Modulating membrane protein stability and association by design
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Patrick Barth
    posted to biomembranes protein_engineering by sobolevnrm on 2007-09-24 13:01:33 as read along with 1 group baker-group
  • Transitive homology-guided structural studies lead to discovery of Cro proteins with 40% sequence identity but different folds
    Proceedings of the National Academy of Sciences, Vol. 105, No. 7. (19 February 2008), pp. 2343-2348.
    by Christian G Roessler, Branwen M Hall, William J Anderson, Wendy M Ingram, Sue A Roberts, William R Montfort, Matthew H Cordes
    posted to bioinformatics protein_engineering structure by sobolevnrm on 2008-03-13 11:41:42 as read along with 2 people and 1 group barry cactus baker-group
  • Designed Protein-Protein Association
    Science, Vol. 319, No. 5860. (11 January 2008), pp. 206-209.
    by Dirk Grueninger, Nora Treiber, Mathias O Ziegler, Jochen W Koetter, Monika-Sarah Schulze, Georg E Schulz
    posted to protein_engineering protein-protein_interactions by sobolevnrm on 2008-02-18 12:21:23 as read along with 5 people and 1 group higueruelo cjeans zwang cactus biomcgary baker-group
  • From the Cover: Outer membrane protein G: Engineering a quiet pore for biosensing
    Proceedings of the National Academy of Sciences, Vol. 105, No. 17. (29 April 2008), pp. 6272-6277.
    by Min Chen, Syma Khalid, Mark S Sansom, Hagan Bayley
    posted to protein_engineering ion_channels biomembranes by sobolevnrm on 2008-06-13 11:39:50 as read along with 1 person and 1 group marck baker-group
  • The Design and Evaluation of Heparin-Binding Foldamers
    Angewandte Chemie International Edition, Vol. 44, No. 41. (2005), pp. 6685-6689.
    by Sungwook Choi, Dylan J Clements, Vojislava Pophristic, Ivaylo Ivanov, Satyavani Vemparala, Joel S Bennett, Michael L Klein, Jeffrey D Winkler, William F Degrado
    posted to electrostatics protein_engineering protein_folding protein-ligand_interactions by sobolevnrm on 2008-04-16 21:11:55 as read along with 1 group baker-group
  • An improved pairwise decomposable finite-difference Poisson-Boltzmann method for computational protein design
    Journal of Computational Chemistry, Vol. 9999, No. 9999. (2007), NA.
    by Christina L Vizcarra, Naigong Zhang, Shannon A Marshall, Ned S Wingreen, Chen Zeng, Stephen L Mayo
    posted to electrostatics protein_engineering solvation by sobolevnrm on 2008-01-21 12:56:17 as read along with 1 group baker-group
  • Rewiring MAP kinase pathways using alternative scaffold assembly mechanisms.
    Science, Vol. 299, No. 5609. (14 February 2003), pp. 1061-1064.
    by SH Park, A Zarrinpar, WA Lim
    posted to chimeric_adaptors protein_engineering sbw_buildingblocks signallingcircuits synthetic_biology by rklancer on 2005-03-17 05:37:13 as read along with 1 person tmt
  • Creating small-molecule-dependent switches to modulate biological functions.
    Chem Biol, Vol. 12, No. 2. (February 2005), pp. 151-161.
    by AR Buskirk, DR Liu
    posted to protein_engineering signallingcircuits synthetic_biology by rklancer on 2005-08-18 21:07:43 as *** along with 3 people mdimmic lna monod
  • Synthetic protein-protein interaction domains created by shuffling Cys2His2 zinc-fingers
    Mol Syst Biol, Vol. 2, No. 1. (21 March 2006), pp. msb4100053-E1-msb4100053-E15.
    by Astrid V Giesecke, Rui Fang, Keith J Joung
    posted to protein_engineering synthetic_biology by rklancer on 2006-05-06 18:49:39 as ** along with 2 people laurabailey ltam
  • Controlling integration specificity of a yeast retrotransposon.
    Proc Natl Acad Sci U S A, Vol. 100, No. 10. (13 May 2003), pp. 5891-5895.
    by Y Zhu, J Dai, PG Fuerst, DF Voytas
    posted to modular_redesign protein_engineering transposons by rklancer on 2005-06-02 03:33:11 as **
  • Rewiring cell signaling: the logic and plasticity of eukaryotic protein circuitry.
    Curr Opin Struct Biol, Vol. 14, No. 6. (December 2004), pp. 690-699.
    by JE Dueber, BJ Yeh, RP Bhattacharyya, WA Lim
    posted to chimeric_adaptors modular_redesign protein_engineering reviews sbw_buildingblocks signallingcircuits synthetic_biology by rklancer on 2005-03-15 06:42:23 as read along with 1 person lna
  • Reprogramming control of an allosteric signaling switch through modular recombination.
    Science, Vol. 301, No. 5641. (26 September 2003), pp. 1904-1908.
    by JE Dueber, BJ Yeh, K Chak, WA Lim
    posted to modular_redesign protein_engineering sbw_buildingblocks signallingcircuits synthetic_biology by rklancer on 2005-03-15 06:38:02 as read
  • Conditional protein splicing: a new tool to control protein structure and function in vitro and in vivo.
    J Am Chem Soc, Vol. 125, No. 35. (3 September 2003), pp. 10561-10569.
    by HD Mootz, ES Blum, AB Tyszkiewicz, TW Muir
    posted to inteins protein_engineering sbw_buildingblocks splicing by rklancer on 2005-05-20 17:11:07 as ** along with 1 person batallah
  • The biochemical architecture of an ancient adaptive landscape.
    Science, Vol. 310, No. 5747. (21 October 2005), pp. 499-501.
    by M Lunzer, SP Miller, R Felsheim, AM Dean
    posted to adaptive_landscape epistasis evolution protein_engineering by rklancer on 2005-10-23 16:06:57 as *** along with 2 people kentsis christiw
  • Missense meanderings in sequence space: a biophysical view of protein evolution
    Nature Reviews Genetics, Vol. 6, No. 9. (01 September 2005), pp. 678-687.
    by Mark A Depristo, Daniel M Weinreich, Daniel L Hartl
    posted to evolution protein_engineering proteins by rklancer on 2005-09-21 01:35:17 as *** along with 2 people monod ramensky
  • 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 **
  • Nanohedra: using symmetry to design self assembling protein cages, layers, crystals, and filaments.
    Proc Natl Acad Sci U S A, Vol. 98, No. 5. (27 February 2001), pp. 2217-2221.
    by JE Padilla, C Colovos, TO Yeates
    posted to crystallization nanoparticle protein_design protein_engineering by jwm on 2005-09-21 14:08:22 as ** along with 1 person and 2 groups bethbromley Radiation_Damage Stressosome
  • Design and synthesis of alpha-helical peptides and mimetics.
    Org Biomol Chem, Vol. 5, No. 22. (21 November 2007), pp. 3577-3585.
    by J Garner, MM Harding
    posted to protein_engineering by jwm on 2008-06-19 17:32:40 as ** along with 1 person higueruelo
  • 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 **
  • Disulfide by DesignTM: a computational method for the rational design of disulfide bonds in proteins
    Bioinformatics, Vol. 19, No. 14. (22 September 2003), pp. 1852-1853.
    by Alan A Dombkowski
    posted to protein_engineering disulfide by jwm on 2008-05-29 17:14:00 as **
  • Designing supramolecular protein assemblies.
    Curr Opin Struct Biol, Vol. 12, No. 4. (August 2002), pp. 464-470.
    by TO Yeates, JE Padilla
    posted to crystallization nanoparticle protein_design protein_engineering by jwm on 2005-09-20 15:45:11 as ** along with 2 groups Radiation_Damage Stressosome
  • 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 **
  • Determination of nonligand amino acids critical to [4Fe-4S]2+/+ assembly in ferredoxin maquettes.
    Biochemistry, Vol. 38, No. 32. (10 August 1999), pp. 10442-10448.
    by SE Mulholland, BR Gibney, F Rabanal, PL Dutton
    posted to protein_engineering iron_sulfur_cluster by jwm on 2008-06-06 13:19:41 as **
  • Rational design of a mononuclear metal site into the archaeal Rieske-type protein scaffold.
    The Journal of biological chemistry, Vol. 280, No. 10. (11 March 2005), pp. 9129-9134.
    by T Iwasaki, A Kounosu, Y Tao, Z Li, JE Shokes, NJ Cosper, T Imai, A Urushiyama, RA Scott
    posted to protein_engineering by jwm on 2008-06-06 13:19:24 as **
  • Synthesis of the H-cluster framework of iron-only hydrogenase
    Nature, Vol. 433, No. 7026. (10 February 2005), pp. 610-613.
    by Cedric Tard, Xiaoming Liu, Saad K Ibrahim, Maurizio Bruschi, Luca D De Gioia, Sian C Davies, Xin Yang, Lai-Sheng Wang, Gary Sawers, Christopher J Pickett
    posted to protein_engineering by jwm on 2008-06-06 13:18:54 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
  • 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 **
  • Modified reaction centres oxidize tyrosine in reactions that mirror photosystem II
    Nature, Vol. 402, No. 6762. (December 1999), pp. 696-699.
    by L Kalman, R Lobrutto, JP Allen, JC Williams
    posted to artificial_photosynthesis protein_engineering by jwm on 2007-11-07 11:53:58 as **
  • Direct Observation of a Transient Tyrosine Radical Competent for Initiating Turnover in a Photochemical Ribonucleotide Reductase.
    J Am Chem Soc (18 October 2007)
    by Steven Y Reece, Mohammad R Seyedsayamdost, Joanne Stubbe, Daniel G Nocera
    posted to artificial_photosynthesis protein_engineering ruthenium by jwm on 2007-11-07 20:29:02 as **
  • Computer-aided modeling of structure stabilizing disulfide bonds in recombinant human interferon-[gamma]
    Pharmaceutica Acta Helvetiae, Vol. 71, No. 1. (June 1996), pp. 37-44.
    by Gero Günther, Till Fechteler, Carmen Villmann, Hayssam Zakaria, Dietmar Schomburg, Bernd Otto
    posted to protein_engineering disulfide by jwm on 2008-05-19 11:13:39 as **
  • Intelligent design: the de novo engineering of proteins with specified functions.
    Dalton Trans, No. 25. (7 July 2006), pp. 3045-3051.
    by RL Koder, PL Dutton
    posted to protein_engineering by jwm on 2007-11-07 11:46:26 as **
  • Crystal structure of the human β2 adrenergic G-protein-coupled receptor
    Nature (21 October 2007)
    by Søren GF Rasmussen, Hee-Jung Choi, Daniel M Rosenbaum, Tong S Kobilka, Foon S Thian, Patricia C Edwards, Manfred Burghammer, Venkata RP Ratnala, Ruslan Sanishvili, Robert F Fischetti, Gebhard FX Schertler, William I Weis, Brian K Kobilka
    posted to gpcr gpcr_structure protein_engineering by jwm on 2007-11-26 10:22:18 as ** along with 1 person tkershaw
  • GPCR Engineering Yields High-Resolution Structural Insights into 2-Adrenergic Receptor Function
    Science, Vol. 318, No. 5854. (23 November 2007), pp. 1266-1273.
    by Daniel M Rosenbaum, Vadim Cherezov, Michael A Hanson, Soren G Rasmussen, Foon S Thian, Tong S Kobilka, Hee-Jung Choi, Xiao-Jie Yao, William I Weis, Raymond C Stevens, Brian K Kobilka
    posted to gpcr gpcr_structure protein_engineering by jwm on 2007-11-26 10:21:49 as ** along with 2 people merj rph
  • High-Resolution Crystal Structure of an Engineered Human beta2-Adrenergic G Protein Coupled Receptor.
    Science (25 October 2007)
    by Vadim Cherezov, Daniel M M Rosenbaum, Michael A A Hanson, Søren G F G Rasmussen, Foon Sun S Thian, Tong Sun S Kobilka, Hee-Jung J Choi, Peter Kuhn, William I I Weis, Brian K K Kobilka, Raymond C C Stevens
    posted to gpcr gpcr_structure protein_engineering by jwm on 2007-11-26 10:21:44 as ** along with 6 people and 3 groups Fritz gcaltabiano merj sobolevnrm davidlott rph neurolit LabCompMed baker-group
  • Andante: Reducing side-chain rotamer search space during comparative modeling using environment-specific substitution probabilities.
    Bioinformatics (6 March 2007)
    by Richard E E Smith, Simon C C Lovell, David F F Burke, Rinaldo W W Montalvao, Tom L L Blundell
    posted to structural_bioinformatics protein_engineering by jwm on 2008-05-19 11:09:42 as ** along with 1 person carlk
  • Model building of disulfide bonds in proteins with known three-dimensional structure.
    Protein Eng, Vol. 2, No. 2. (July 1988), pp. 119-125.
    by B Hazes, BW Dijkstra
    posted to xtal_software structural_bioinformatics protein_engineering disulfide by jwm on 2007-09-14 13:19:58 as ** along with 2 groups Radiation_Damage Stressosome
  • MODIP revisited: re-evaluation and refinement of an automated procedure for modeling of disulfide bonds in proteins
    Protein Eng., Vol. 16, No. 3. (1 March 2003), pp. 187-193.
    by Vardhan S Dani, C Ramakrishnan, Raghavan Varadarajan
    posted to protein_engineering disulfide by jwm on 2008-05-19 11:08:53 as **
  • Stereochemical modeling of disulfide bridges. Criteria for introduction into proteins by site-directed mutagenesis
    Protein Eng., Vol. 3, No. 2. (1 November 1989), pp. 95-103.
    by R Sowdhamini, N Srinivasan, Brian Shoichet, Daniel V Santi, C Ramakrishnan, P Balaram
    posted to protein_engineering disulfide by jwm on 2008-05-19 11:06:36 as **
  • By-passing immunization : Human antibodies from V-gene libraries displayed on phage
    Journal of Molecular Biology, Vol. 222, No. 3. (5 December 1991), pp. 581-597.
    by James D Marks, Hennie R Hoogenboom, Timothy P Bonnert, John Mccafferty, Andrew D Griffiths, Greg Winter
    posted to scfv protein_engineering by GX on 2008-04-26 07:51:42 as **
  • Selection and Application of Human Single Chain Fv Antibody Fragments from a Semi-synthetic Phage Antibody Display Library with Designed CDR3 Regions
    Journal of Molecular Biology, Vol. 248, No. 1. (21 April 1995), pp. 97-105.
    by John de Kruif, Edwin Boel, Ton Logtenberg
    posted to scfv protein_engineering by GX on 2008-04-26 07:46:21 as **
  • Enhancing the stability and solubility of TEV protease using in silico design.
    Protein Sci (28 September 2007)
    by Lisa D D Cabrita, Dimitri Gilis, Amy L L Robertson, Yves Dehouck, Marianne Rooman, Stephen P P Bottomley
    posted to protein_engineering stability by cat_worth on 2007-10-08 09:23:21 as **
  • Computational redesign of endonuclease DNA binding and cleavage specificity
    Nature, Vol. 441, No. 7093. (1 June 2006), pp. 656-659.
    by Justin Ashworth, James J Havranek, Carlos M Duarte, Django Sussman, Raymond J Monnat, Barry L Stoddard, David Baker
    posted to protein_engineering by aalibes on 2007-05-29 09:29:13 as ** along with 3 people and 1 group apaydin jwm condon beta
  • Potential energy functions for protein design.
    Curr Opin Struct Biol (24 March 2007)
    by F Edward E Boas, Pehr B B Harbury
    posted to protein_engineering by aalibes on 2007-04-18 15:35:47 as ** along with 1 person BragilMassoud
  • Computational protein design: structure, function and combinatorial diversity
    Current Opinion in Chemical Biology, Vol. In Press, Corrected Proof
    by Seung-Gu Kang, Jeffery G Saven
    posted to protein_engineering by aalibes on 2007-05-29 09:27:49 as **
  • Semi-rational approaches to engineering enzyme activity: combining the benefits of directed evolution and rational design
    Current Opinion in Biotechnology, Vol. 16, No. 4. (August 2005), pp. 378-384.
    by Roberto A Chica, Nicolas Doucet, Joelle N Pelletier
    posted to protein_engineering by aalibes on 2006-10-03 18:29:09 as ** along with 1 person Evangelia
  • Energy estimation in protein design.
    Curr Opin Struct Biol, Vol. 12, No. 4. (August 2002), pp. 441-446.
    by J Mendes, R Guerois, L Serrano
    posted to protein_engineering by aalibes on 2006-10-11 14:14:39 as **
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