Literature DB >> 18049466

Dissecting protein structure and function using directed evolution.

Courtney M Yuen1, David R Liu.   

Abstract

To characterize the contributions of individual amino acids to the structure or function of a protein, researchers have adopted directed evolution approaches, which use iterated cycles of mutagenesis and selection or screening to search vast areas of sequence space for sets of mutations that provide insights into the protein of interest.

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Year:  2007        PMID： 18049466      PMCID： PMC4255555          DOI： 10.1038/nmeth1207-995

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


  16 in total

1.  Predicting the emergence of antibiotic resistance by directed evolution and structural analysis.

Authors:  M C Orencia; J S Yoon; J E Ness; W P Stemmer; R C Stevens
Journal:  Nat Struct Biol       Date:  2001-03

Review 2.  Rational evolutionary design: the theory of in vitro protein evolution.

Authors:  C A Voigt; S Kauffman; Z G Wang
Journal:  Adv Protein Chem       Date:  2000

3.  Increased rigidity of domain structures enhances the stability of a mutant enzyme created by directed evolution.

Authors:  Jun Hoseki; Akihiro Okamoto; Naoki Takada; Atsushi Suenaga; Noriyuki Futatsugi; Akihiko Konagaya; Makoto Taiji; Takato Yano; Seiki Kuramitsu; Hiroyuki Kagamiyama
Journal:  Biochemistry       Date:  2003-12-16       Impact factor: 3.162

4.  Structural basis of selection and thermostability of laboratory evolved Bacillus subtilis lipase.

Authors:  Priyamvada Acharya; Eerappa Rajakumara; Rajan Sankaranarayanan; Nalam M Rao
Journal:  J Mol Biol       Date:  2004-08-27       Impact factor: 5.469

Review 5.  Directed evolution of proteins for heterologous expression and stability.

Authors:  Cintia Roodveldt; Amir Aharoni; Dan S Tawfik
Journal:  Curr Opin Struct Biol       Date:  2005-02       Impact factor: 6.809

6.  Characterization of T cell receptors engineered for high affinity against toxic shock syndrome toxin-1.

Authors:  Rebecca A Buonpane; Beenu Moza; Eric J Sundberg; David M Kranz
Journal:  J Mol Biol       Date:  2005-10-21       Impact factor: 5.469

Review 7.  Laboratory-directed protein evolution.

Authors:  Ling Yuan; Itzhak Kurek; James English; Robert Keenan
Journal:  Microbiol Mol Biol Rev       Date:  2005-09       Impact factor: 11.056

8.  Probing a protein-protein interaction by in vitro evolution.

Authors:  George Thom; Alexis C Cockroft; Andrew G Buchanan; Cathy Joberty Candotti; E Suzanne Cohen; David Lowne; Phill Monk; Celia P Shorrock-Hart; Lutz Jermutus; Ralph R Minter
Journal:  Proc Natl Acad Sci U S A       Date:  2006-05-09       Impact factor: 11.205

9.  A natural polymorphism in beta-lactamase is a global suppressor.

Authors:  W Huang; T Palzkill
Journal:  Proc Natl Acad Sci U S A       Date:  1997-08-05       Impact factor: 11.205

10.  Tuning the activity of an enzyme for unusual environments: sequential random mutagenesis of subtilisin E for catalysis in dimethylformamide.

Authors:  K Chen; F H Arnold
Journal:  Proc Natl Acad Sci U S A       Date:  1993-06-15       Impact factor: 11.205
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  19 in total

1.  Evolution-guided engineering of small-molecule biosensors.

Authors:  Tim Snoek; Evan K Chaberski; Francesca Ambri; Stefan Kol; Sara P Bjørn; Bo Pang; Jesus F Barajas; Ditte H Welner; Michael K Jensen; Jay D Keasling
Journal:  Nucleic Acids Res       Date:  2020-01-10       Impact factor: 16.971

2.  Directed evolution of the metalloproteinase inhibitor TIMP-1 reveals that its N- and C-terminal domains cooperate in matrix metalloproteinase recognition.

Authors:  Maryam Raeeszadeh-Sarmazdeh; Kerrie A Greene; Banumathi Sankaran; Gregory P Downey; Derek C Radisky; Evette S Radisky
Journal:  J Biol Chem       Date:  2019-04-30       Impact factor: 5.157

3.  Potential role of melastatin-related transient receptor potential cation channel subfamily M gene expression in the pathogenesis of urinary bladder cancer.

Authors:  Gülay Güleç Ceylan; Ebru Etem Önalan; Tuncay Kuloğlu; Gülten Aydoğ; İbrahim Keleş; Şenol Tonyali; Cavit Ceylan
Journal:  Oncol Lett       Date:  2016-11-07       Impact factor: 2.967

4.  Assessing energetic contributions to binding from a disordered region in a protein-protein interaction .

Authors:  Sangwoo Cho; Chittoor P Swaminathan; Daniel A Bonsor; Melissa C Kerzic; Rongjin Guan; Jianying Yang; Michele C Kieke; Peter S Andersen; David M Kranz; Roy A Mariuzza; Eric J Sundberg
Journal:  Biochemistry       Date:  2010-11-02       Impact factor: 3.162

5.  Exploiting models of molecular evolution to efficiently direct protein engineering.

Authors:  Megan F Cole; Eric A Gaucher
Journal:  J Mol Evol       Date:  2010-12-04       Impact factor: 2.395

6.  All-codon scanning identifies p53 cancer rescue mutations.

Authors:  Roberta Baronio; Samuel A Danziger; Linda V Hall; Kirsty Salmon; G Wesley Hatfield; Richard H Lathrop; Peter Kaiser
Journal:  Nucleic Acids Res       Date:  2010-06-25       Impact factor: 16.971

Review 7.  Expanding the scope of site-specific recombinases for genetic and metabolic engineering.

Authors:  Thomas Gaj; Shannon J Sirk; Carlos F Barbas
Journal:  Biotechnol Bioeng       Date:  2013-09-13       Impact factor: 4.530

8.  Functional evolution of IGF2:IGF2R domain 11 binding generates novel structural interactions and a specific IGF2 antagonist.

Authors:  Susana Frago; Ryan D Nicholls; Madeleine Strickland; Jennifer Hughes; Christopher Williams; Lee Garner; Mirvat Surakhy; Rory Maclean; Dellel Rezgui; Stuart N Prince; Oliver J Zaccheo; Daniel Ebner; Sabina Sanegre; Sheng Yu; Francesca M Buffa; Matthew P Crump; Andrew Bassim Hassan
Journal:  Proc Natl Acad Sci U S A       Date:  2016-05-02       Impact factor: 11.205

Review 9.  Engineering cytochrome P450 biocatalysts for biotechnology, medicine and bioremediation.

Authors:  Santosh Kumar
Journal:  Expert Opin Drug Metab Toxicol       Date:  2010-02       Impact factor: 4.481

10.  An experimental and computational evolution-based method to study a mode of co-evolution of overlapping open reading frames in the AAV2 viral genome.

Authors:  Yasuhiro Kawano; Shane Neeley; Kei Adachi; Hiroyuki Nakai
Journal:  PLoS One       Date:  2013-06-24       Impact factor: 3.240
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