Protein sequence design by conformational landscape optimization
作者： Christoffer Norn , Basile IM Wicky , David Juergens , Sirui Liu , David Kim
关键词: Protein design 、 Peptide sequence 、 Folding (DSP implementation) 、 Biological system 、 Protein structure prediction 、 Energy landscape 、 Maxima and minima 、 Protein sequencing 、 Sequence (medicine) 、 Computer science
摘要: … amino acid sequences but also, all possible structures, most current approaches focus … structure, often checking by protein structure prediction in a second step that the desired structure …
sci-hub.st 参考文章(33)
Carol A Rohl, Charlie EM Strauss, Kira MS Misura, David Baker, None, Protein structure prediction using Rosetta. Methods in Enzymology. ,vol. 383, pp. 66- 93 ,(2004) , 10.1016/S0076-6879(04)83004-0
Brian Kuhlman, Gautam Dantas, Gregory C. Ireton, Gabriele Varani, Barry L. Stoddard, David Baker, Design of a Novel Globular Protein Fold with Atomic-Level Accuracy Science. ,vol. 302, pp. 1364- 1368 ,(2003) , 10.1126/SCIENCE.1089427
Fan Zheng, Jian Zhang, Gevorg Grigoryan, Tertiary Structural Propensities Reveal Fundamental Sequence/Structure Relationships Structure. ,vol. 23, pp. 961- 971 ,(2015) , 10.1016/J.STR.2015.03.015
Andrew Leaver-Fay, Ron Jacak, P. Benjamin Stranges, Brian Kuhlman, A generic program for multistate protein design. PLOS ONE. ,vol. 6, ,(2011) , 10.1371/JOURNAL.PONE.0020937
Jorge Cortés, Finite-time convergent gradient flows with applications to network consensus Automatica. ,vol. 42, pp. 1993- 2000 ,(2006) , 10.1016/J.AUTOMATICA.2006.06.015
David T. Jones, De novo protein design using pairwise potentials and a genetic algorithm Protein Science. ,vol. 3, pp. 567- 574 ,(1994) , 10.1002/PRO.5560030405
William R. Schief, David Baker, Po-Ssu Huang, Yih-En Andrew Ban, Florian Richter, Ingemar Andre, Robert Vernon, RosettaRemodel: A Generalized Framework for Flexible Backbone Protein Design PLoS ONE. ,vol. 6, pp. e24109- ,(2011) , 10.1371/JOURNAL.PONE.0024109
James J. Havranek, Pehr B. Harbury, Automated design of specificity in molecular recognition. Nature Structural & Molecular Biology. ,vol. 10, pp. 45- 52 ,(2003) , 10.1038/NSB877
K. Lindorff-Larsen, S. Piana, R. O. Dror, D. E. Shaw, How Fast-Folding Proteins Fold Science. ,vol. 334, pp. 517- 520 ,(2011) , 10.1126/SCIENCE.1208351
D. E. Shaw, P. Maragakis, K. Lindorff-Larsen, S. Piana, R. O. Dror, M. P. Eastwood, J. A. Bank, J. M. Jumper, J. K. Salmon, Y. Shan, W. Wriggers, Atomic-Level Characterization of the Structural Dynamics of Proteins Science. ,vol. 330, pp. 341- 346 ,(2010) , 10.1126/SCIENCE.1187409