Literature DB >> 22334143

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

Lloyd Davis1, Jason W Chin.   

Abstract

Designer amino acids, beyond the canonical 20 that are normally used by cells, can now be site-specifically encoded into proteins in cells and organisms. This is achieved using 'orthogonal' aminoacyl-tRNA synthetase-tRNA pairs that direct amino acid incorporation in response to an amber stop codon (UAG) placed in a gene of interest. Using this approach, it is now possible to study biology in vitro and in vivo with an increased level of molecular precision. This has allowed new biological insights into protein conformational changes, protein interactions, elementary processes in signal transduction and the role of post-translational modifications.

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Year:  2012        PMID: 22334143     DOI: 10.1038/nrm3286

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  181 in total

1.  Selective inhibition of calcineurin-NFAT signaling by blocking protein-protein interaction with small organic molecules.

Authors:  Michael H A Roehrl; Sunghyun Kang; José Aramburu; Gerhard Wagner; Anjana Rao; Patrick G Hogan
Journal:  Proc Natl Acad Sci U S A       Date:  2004-05-06       Impact factor: 11.205

2.  Tom7 regulates Mdm10-mediated assembly of the mitochondrial import channel protein Tom40.

Authors:  Koji Yamano; Sachiko Tanaka-Yamano; Toshiya Endo
Journal:  J Biol Chem       Date:  2010-10-29       Impact factor: 5.157

3.  A role for cell-cycle-regulated histone H3 lysine 56 acetylation in the DNA damage response.

Authors:  Hiroshi Masumoto; David Hawke; Ryuji Kobayashi; Alain Verreault
Journal:  Nature       Date:  2005-07-14       Impact factor: 49.962

4.  Site-specific functionalization of proteins by organopalladium reactions.

Authors:  Koichiro Kodama; Seketsu Fukuzawa; Hiroshi Nakayama; Kensaku Sakamoto; Takanori Kigawa; Takashi Yabuki; Natsuko Matsuda; Mikako Shirouzu; Koji Takio; Shigeyuki Yokoyama; Kazuo Tachibana
Journal:  Chembiochem       Date:  2007-01-22       Impact factor: 3.164

5.  Oxidative coupling of peptides to a virus capsid containing unnatural amino acids.

Authors:  Zachary M Carrico; Dante W Romanini; Ryan A Mehl; Matthew B Francis
Journal:  Chem Commun (Camb)       Date:  2008-01-29       Impact factor: 6.222

6.  An eight residue fragment of an acyl carrier protein suffices for post-translational introduction of fluorescent pantetheinyl arms in protein modification in vitro and in vivo.

Authors:  Zhe Zhou; Alexander Koglin; Yu Wang; Andrew P McMahon; Christopher T Walsh
Journal:  J Am Chem Soc       Date:  2008-07-02       Impact factor: 15.419

7.  The sirtuins hst3 and Hst4p preserve genome integrity by controlling histone h3 lysine 56 deacetylation.

Authors:  Ivana Celic; Hiroshi Masumoto; Wendell P Griffith; Pamela Meluh; Robert J Cotter; Jef D Boeke; Alain Verreault
Journal:  Curr Biol       Date:  2006-07-11       Impact factor: 10.834

8.  Expanding the genetic code of Escherichia coli with phosphoserine.

Authors:  Hee-Sung Park; Michael J Hohn; Takuya Umehara; Li-Tao Guo; Edith M Osborne; Jack Benner; Christopher J Noren; Jesse Rinehart; Dieter Söll
Journal:  Science       Date:  2011-08-26       Impact factor: 47.728

9.  Adding L-3-(2-Naphthyl)alanine to the genetic code of E. coli.

Authors:  Lei Wang; Ansgar Brock; Peter G Schultz
Journal:  J Am Chem Soc       Date:  2002-03-06       Impact factor: 15.419

10.  Expanding the genetic code of yeast for incorporation of diverse unnatural amino acids via a pyrrolysyl-tRNA synthetase/tRNA pair.

Authors:  Susan M Hancock; Rajendra Uprety; Alexander Deiters; Jason W Chin
Journal:  J Am Chem Soc       Date:  2010-10-27       Impact factor: 15.419

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  110 in total

1.  Imaging and manipulating proteins in live cells through covalent labeling.

Authors:  Lin Xue; Iuliia A Karpenko; Julien Hiblot; Kai Johnsson
Journal:  Nat Chem Biol       Date:  2015-11-17       Impact factor: 15.040

2.  Improved Incorporation of Noncanonical Amino Acids by an Engineered tRNA(Tyr) Suppressor.

Authors:  Benjamin J Rauch; Joseph J Porter; Ryan A Mehl; John J Perona
Journal:  Biochemistry       Date:  2016-01-08       Impact factor: 3.162

3.  Site-selective protein-modification chemistry for basic biology and drug development.

Authors:  Nikolaus Krall; Filipa P da Cruz; Omar Boutureira; Gonçalo J L Bernardes
Journal:  Nat Chem       Date:  2015-11-30       Impact factor: 24.427

Review 4.  Atom-by-atom engineering of voltage-gated ion channels: magnified insights into function and pharmacology.

Authors:  Stephan A Pless; Robin Y Kim; Christopher A Ahern; Harley T Kurata
Journal:  J Physiol       Date:  2015-03-13       Impact factor: 5.182

5.  Pyrrolysyl-tRNA synthetase variants reveal ancestral aminoacylation function.

Authors:  Jae-hyeong Ko; Yane-Shih Wang; Akiyoshi Nakamura; Li-Tao Guo; Dieter Söll; Takuya Umehara
Journal:  FEBS Lett       Date:  2013-08-28       Impact factor: 4.124

6.  Near-cognate suppression of amber, opal and quadruplet codons competes with aminoacyl-tRNAPyl for genetic code expansion.

Authors:  Patrick O'Donoghue; Laure Prat; Ilka U Heinemann; Jiqiang Ling; Keturah Odoi; Wenshe R Liu; Dieter Söll
Journal:  FEBS Lett       Date:  2012-10-01       Impact factor: 4.124

Review 7.  Repurposing ribosomes for synthetic biology.

Authors:  Yi Liu; Do Soon Kim; Michael C Jewett
Journal:  Curr Opin Chem Biol       Date:  2017-09-01       Impact factor: 8.822

Review 8.  Incorporation of Non-Canonical Amino Acids.

Authors:  Lilia Leisle; Francis Valiyaveetil; Ryan A Mehl; Christopher A Ahern
Journal:  Adv Exp Med Biol       Date:  2015       Impact factor: 2.622

9.  Peptide and Protein Dynamics and Low-Temperature/DNP Magic Angle Spinning NMR.

Authors:  Qing Zhe Ni; Evgeny Markhasin; Thach V Can; Björn Corzilius; Kong Ooi Tan; Alexander B Barnes; Eugenio Daviso; Yongchao Su; Judith Herzfeld; Robert G Griffin
Journal:  J Phys Chem B       Date:  2017-05-10       Impact factor: 2.991

10.  Genetic code expansion in the mouse brain.

Authors:  Russell J Ernst; Toke P Krogager; Elizabeth S Maywood; Roberto Zanchi; Václav Beránek; Thomas S Elliott; Nicholas P Barry; Michael H Hastings; Jason W Chin
Journal:  Nat Chem Biol       Date:  2016-08-29       Impact factor: 15.040

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