Exploring protein fitness landscapes by directed evolution

被引:764
作者
Romero, Philip A. [1 ]
Arnold, Frances H. [1 ]
机构
[1] CALTECH, Div Chem & Chem Engn, Pasadena, CA 91125 USA
基金
美国国家卫生研究院; 美国国家科学基金会;
关键词
STRUCTURE-GUIDED RECOMBINATION; RED FLUORESCENT PROTEIN; IN-VITRO EVOLUTION; SEQUENCE SPACE; RNA ENZYME; SUBSTRATE SPECIFICITIES; COMPUTATIONAL DESIGN; LABORATORY EVOLUTION; METABOLIC PATHWAYS; CATALYTIC-ACTIVITY;
D O I
10.1038/nrm2805
中图分类号
Q2 [细胞生物学];
学科分类号
071009 ; 090102 ;
摘要
Directed evolution circumvents our profound ignorance of how a protein's sequence encodes its function by using iterative rounds of random mutation and artificial selection to discover new and useful proteins. Proteins can be tuned to adapt to new functions or environments by simple adaptive walks involving small numbers of mutations. Directed evolution studies have shown how rapidly some proteins can evolve under strong selection pressures and, because the entire 'fossil record' of evolutionary intermediates is available for detailed study, they have provided new insight into the relationship between sequence and function. Directed evolution has also shown how mutations that are functionally neutral can set the stage for further adaptation.
引用
收藏
页码:866 / 876
页数:11
相关论文
共 114 条
[81]   Expanding the range of substrate acceptance of enzymes: Combinatorial active-site saturation test [J].
Reetz, MT ;
Bocola, M ;
Carballeira, JD ;
Zha, DX ;
Vogel, A .
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION, 2005, 44 (27) :4192-4196
[82]   SYSTEMATIC MUTATION OF BACTERIOPHAGE-T4 LYSOZYME [J].
RENNELL, D ;
BOUVIER, SE ;
HARDY, LW ;
POTEETE, AR .
JOURNAL OF MOLECULAR BIOLOGY, 1991, 222 (01) :67-87
[83]   SELECTION INVITRO OF AN RNA ENZYME THAT SPECIFICALLY CLEAVES SINGLE-STRANDED-DNA [J].
ROBERTSON, DL ;
JOYCE, GF .
NATURE, 1990, 344 (6265) :467-468
[84]   Kemp elimination catalysts by computational enzyme design [J].
Rothlisberger, Daniela ;
Khersonsky, Olga ;
Wollacott, Andrew M. ;
Jiang, Lin ;
DeChancie, Jason ;
Betker, Jamie ;
Gallaher, Jasmine L. ;
Althoff, Eric A. ;
Zanghellini, Alexandre ;
Dym, Orly ;
Albeck, Shira ;
Houk, Kendall N. ;
Tawfik, Dan S. ;
Baker, David .
NATURE, 2008, 453 (7192) :190-U4
[85]   HIV-1 proviral DNA excision using an evolved recombinase [J].
Sarkar, Indrani ;
Hauber, Ilona ;
Hauber, Joachim ;
Buchholz, Frank .
SCIENCE, 2007, 316 (5833) :1912-1915
[86]   Directed evolution of single proteins, metabolic pathways, and viruses [J].
Schmidt-Dannert, C .
BIOCHEMISTRY, 2001, 40 (44) :13125-13136
[87]   Generation of large libraries of random mutants in Bacillus subtilis by PCR-based plasmid multimerization [J].
Shafikhani, S ;
Siegel, RA ;
Ferrari, E ;
Schellenberger, V .
BIOTECHNIQUES, 1997, 23 (02) :304-310
[88]   Improved monomeric red, orange and yellow fluorescent proteins derived from Discosoma sp red fluorescent protein [J].
Shaner, NC ;
Campbell, RE ;
Steinbach, PA ;
Giepmans, BNG ;
Palmer, AE ;
Tsien, RY .
NATURE BIOTECHNOLOGY, 2004, 22 (12) :1567-1572
[89]   Demonstration of the importance and usefulness of manipulating non-active-site residues in protein design [J].
Shimotohno, A ;
Oue, S ;
Yano, T ;
Kuramitsu, S ;
Kagamiyama, R .
JOURNAL OF BIOCHEMISTRY, 2001, 129 (06) :943-948
[90]   NATURAL SELECTION AND CONCEPT OF A PROTEIN SPACE [J].
SMITH, JM .
NATURE, 1970, 225 (5232) :563-+