Literature DB >> 19004806

Protein evolution with an expanded genetic code.

Chang C Liu1, Antha V Mack, Meng-Lin Tsao, Jeremy H Mills, Hyun Soo Lee, Hyeryun Choe, Michael Farzan, Peter G Schultz, Vaughn V Smider.   

Abstract

We have devised a phage display system in which an expanded genetic code is available for directed evolution. This system allows selection to yield proteins containing unnatural amino acids should such sequences functionally outperform ones containing only the 20 canonical amino acids. We have optimized this system for use with several unnatural amino acids and provide a demonstration of its utility through the selection of anti-gp120 antibodies. One such phage-displayed antibody, selected from a naïve germline scFv antibody library in which six residues in V(H) CDR3 were randomized, contains sulfotyrosine and binds gp120 more effectively than a similarly displayed known sulfated antibody isolated from human serum. These experiments suggest that an expanded "synthetic" genetic code can confer a selective advantage in the directed evolution of proteins with specific properties.

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Year:  2008        PMID: 19004806      PMCID: PMC2584696          DOI: 10.1073/pnas.0809543105

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  22 in total

1.  A helper phage to improve single-chain antibody presentation in phage display.

Authors:  S Rondot; J Koch; F Breitling; S Dübel
Journal:  Nat Biotechnol       Date:  2001-01       Impact factor: 54.908

2.  Directed evolution of novel polymerase activities: mutation of a DNA polymerase into an efficient RNA polymerase.

Authors:  Gang Xia; Liangjing Chen; Takashi Sera; Ming Fa; Peter G Schultz; Floyd E Romesberg
Journal:  Proc Natl Acad Sci U S A       Date:  2002-05-14       Impact factor: 11.205

3.  Hyperphage. Improving antibody presentation in phage display.

Authors:  Olaf Broders; Frank Breitling; Stefan Dübel
Journal:  Methods Mol Biol       Date:  2003

4.  Structural basis of tyrosine sulfation and VH-gene usage in antibodies that recognize the HIV type 1 coreceptor-binding site on gp120.

Authors:  Chih-chin Huang; Miro Venturi; Shahzad Majeed; Michael J Moore; Sanjay Phogat; Mei-Yun Zhang; Dimiter S Dimitrov; Wayne A Hendrickson; James Robinson; Joseph Sodroski; Richard Wyatt; Hyeryun Choe; Michael Farzan; Peter D Kwong
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-23       Impact factor: 11.205

5.  A genetically encoded bidentate, metal-binding amino acid.

Authors:  Jianming Xie; Wenshe Liu; Peter G Schultz
Journal:  Angew Chem Int Ed Engl       Date:  2007       Impact factor: 15.336

Review 6.  Phage display of combinatorial antibody libraries.

Authors:  C Rader; C F Barbas
Journal:  Curr Opin Biotechnol       Date:  1997-08       Impact factor: 9.740

7.  Zinc finger phage: affinity selection of fingers with new DNA-binding specificities.

Authors:  E J Rebar; C O Pabo
Journal:  Science       Date:  1994-02-04       Impact factor: 47.728

8.  The complete nucleotide sequence of the bacteriocinogenic plasmid CloDF13.

Authors:  H J Nijkamp; R de Lang; A R Stuitje; P J van den Elzen; E Veltkamp; A J van Putten
Journal:  Plasmid       Date:  1986-09       Impact factor: 3.466

9.  Tyrosine sulfation of human antibodies contributes to recognition of the CCR5 binding region of HIV-1 gp120.

Authors:  Hyeryun Choe; Wenhui Li; Paulette L Wright; Natalya Vasilieva; Miro Venturi; Chih-Chin Huang; Christoph Grundner; Tatyana Dorfman; Michael B Zwick; Liping Wang; Eric S Rosenberg; Peter D Kwong; Dennis R Burton; James E Robinson; Joseph G Sodroski; Michael Farzan
Journal:  Cell       Date:  2003-07-25       Impact factor: 41.582

10.  Addition of the keto functional group to the genetic code of Escherichia coli.

Authors:  Lei Wang; Zhiwen Zhang; Ansgar Brock; Peter G Schultz
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-23       Impact factor: 11.205

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  47 in total

Review 1.  Designer proteins: applications of genetic code expansion in cell biology.

Authors:  Lloyd Davis; Jason W Chin
Journal:  Nat Rev Mol Cell Biol       Date:  2012-02-15       Impact factor: 94.444

Review 2.  Mining human antibody repertoires.

Authors:  Roger R Beerli; Christoph Rader
Journal:  MAbs       Date:  2010-07-01       Impact factor: 5.857

Review 3.  Optimizing non-natural protein function with directed evolution.

Authors:  Eric M Brustad; Frances H Arnold
Journal:  Curr Opin Chem Biol       Date:  2010-12-23       Impact factor: 8.822

4.  Palladium(II)-Catalyzed Site-Selective C(sp3 )-H Alkynylation of Oligopeptides: A Linchpin Approach for Oligopeptide-Drug Conjugation.

Authors:  Tao Liu; Jennifer X Qiao; Michael A Poss; Jin-Quan Yu
Journal:  Angew Chem Int Ed Engl       Date:  2017-08-07       Impact factor: 15.336

5.  A genetically encoded sulfotyrosine for VHR function research.

Authors:  Yueting Zheng; Xiaoxuan Lv; Jiangyun Wang
Journal:  Protein Cell       Date:  2013-10       Impact factor: 14.870

Review 6.  Combinatorial peptide libraries: mining for cell-binding peptides.

Authors:  Bethany Powell Gray; Kathlynn C Brown
Journal:  Chem Rev       Date:  2013-12-03       Impact factor: 60.622

7.  Searching of code space for an error-minimized genetic code via codon capture leads to failure, or requires at least 20 improving codon reassignments via the ambiguous intermediate mechanism.

Authors:  Steven E Massey
Journal:  J Mol Evol       Date:  2010-01-28       Impact factor: 2.395

Review 8.  Beyond the canonical 20 amino acids: expanding the genetic lexicon.

Authors:  Travis S Young; Peter G Schultz
Journal:  J Biol Chem       Date:  2010-02-10       Impact factor: 5.157

9.  Efficient expression of tyrosine-sulfated proteins in E. coli using an expanded genetic code.

Authors:  Chang C Liu; Susan E Cellitti; Bernhard H Geierstanger; Peter G Schultz
Journal:  Nat Protoc       Date:  2009       Impact factor: 13.491

10.  A second-generation expression system for tyrosine-sulfated proteins and its application in crop protection.

Authors:  Benjamin Schwessinger; Xiang Li; Thomas L Ellinghaus; Leanne Jade G Chan; Tong Wei; Anna Joe; Nicholas Thomas; Rory Pruitt; Paul D Adams; Maw Sheng Chern; Christopher J Petzold; Chang C Liu; Pamela C Ronald
Journal:  Integr Biol (Camb)       Date:  2015-11-27       Impact factor: 2.192

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