A metabolic prototype for eliminating tryptophan from the genetic code

Scientific Reports

Volumn 3, Issue , 2013, Pages

  Pezo, V ^a,e   Louis, D ^a,f   Guerineau V ^b   Le Caer, J P ^b   Gaillon, L ^a   Mutzel, R ^c   Marliere P ^d  

^a DIF   (France)

^b CNRS   (France)

^c FREIE UNIVERSITÄT BERLIN   (Germany)

^d Isthmus SARL   (France)

^e Institute of Systems and Synthetic Biology   (France)

^f Alderys   (France)

Author keywords

[No Author keywords available]

Indexed keywords

HISTIDINE; HISTIDINE TRANSFER RNA; TRANSKETOLASE; TRYPTOPHAN;

ARTICLE; CODON; ESCHERICHIA COLI; GENETIC CODE; GENETICS; MISSENSE MUTATION; PROTEIN SYNTHESIS;

CODON; ESCHERICHIA COLI; GENETIC CODE; HISTIDINE; MUTATION, MISSENSE; PROTEIN BIOSYNTHESIS; RNA, TRANSFER, HIS; TRANSKETOLASE; TRYPTOPHAN;

MLCS; MLOWN;

EID: 84874608123     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep01359     Document Type: Article

References (27)

1. Walter, K. U., Vamvaca, K. & Hilvert, D. An active enzyme constructed from a 9-amino acid alphabet. J. Biol. Chem. 280, 37742-37746 (2005) (Pubitemid 41642383)
2. Wong, J. T. Evolution of the genetic code. Microbiol. Sci. 5, 174-181 (1988)
3. Glass, J. I. et al. Essential genes of a minimal bacterium. Proc. Natl. Acad. Sci. U. S. A. 103, 425-430 (2006) (Pubitemid 43122417)
4. Baudouin-Cornu, P., Surdin-Kerjan, Y., Marlière, P. & Thomas, D. Molecular evolution of protein atomic composition. Science 293, 297-300 (2001) (Pubitemid 32694745)
5. Elser, J. J., Acquisti, C. & Kumar, S. Stoichiogenomics: the evolutionary ecology of macromolecular elemental composition. Trends Ecol. Evol. (Amst. ) 26, 38-44 (2011)
6. Mazel, D. & Marlière, P. Adaptive eradication of methionine and cysteine from cyanobacterial light-harvesting proteins. Nature 341, 245-248 (1989)
7. Reader, J. S. & Joyce, G. F. Aribozyme composed of only two different nucleotides. Nature 420, 841-844 (2002) (Pubitemid 36019635)
8. Nene, V. & Glass, R. E. Genetic studies on the beta subunit of Escherichia coliRNA polymerase. I. The effect of known, single amino acid substitutions in an essential protein. Mol. Gen. Genet. 188, 399-404 (1982) (Pubitemid 13153784)
9. Pezo, V. et al. Artificially ambiguous genetic code confers growth yield advantage. Proc. Natl. Acad. Sci. U. S. A. 101, 8593-8597 (2004) (Pubitemid 38745815)
10. Brustad, E., Bushey, M. L., Brock, A., Chittuluru, J. &Schultz, P. G. Apromiscuous aminoacyl-tRNA synthetase that incorporates cysteine, methionine, and alanine homologs into proteins. Bioorg. Med. Chem. Lett. 18, 6004-6006 (2008)
11. Schimmel, P. Mistranslation and its control by tRNA synthetases. Philos. Trans. R. Soc. Lond., B, Biol. Sci. 366, 2965-2971 (2011)
12. Gottschalk, G. Bacterial Metabolism. (Springer: 1986)
13. Beuning, P. J. & Musier-Forsyth, K. Transfer RNA recognition by aminoacyltRNA synthetases. Biopolymers 52, 1-28 (1999) (Pubitemid 30173570)
14. Vasil'eva, I. A. & Moor, N. A. Interaction of aminoacyl-tRNA synthetases with tRNA: general principles and distinguishing characteristics of the highmolecular-weight substrate recognition. Biochemistry Mosc. 72, 247-263 (2007) (Pubitemid 46571267)
15. Bertrand, T. et al. Crystal structure of a four-copper laccase complexed with an arylamine: insights into substrate recognition and correlation with kinetics. Biochemistry 41, 7325-7333 (2002) (Pubitemid 34602449)
16. Lewendon, A., Murray, I. A., Shaw, W. V., Gibbs, M. R. & Leslie, A. G. Replacement of catalytic histidine-195 of chloramphenicol acetyltransferase: evidence for a general base role for glutamate. Biochemistry 33, 1944-1950 (1994) (Pubitemid 24089727)
17. Polgár, L. & Bender, M. L. The nature of general base-general acid catalysis in serine proteases. Proc. Natl. Acad. Sci. U. S. A. 64, 1335-1342 (1969)
18. Döring, V. & Marlière, P. Reassigning cysteine in the genetic code of Escherichia coli. Genetics 150, 543-551 (1998) (Pubitemid 28463034)
19. Schneider, G. & Lindqvist, Y. Crystallography and mutagenesis of transketolase: mechanistic implications for enzymatic thiamin catalysis. Biochim. Biophys. Acta 1385, 387-398 (1998) (Pubitemid 28310802)
20. Wikner, C. et al. Identification of catalytically important residues in yeast transketolase. Biochemistry 36, 15643-15649 (1997) (Pubitemid 28027362)
21. Marlière, P. & Mutzel, R. Patent W0 00/34433. (2000)
22. Marlière, P. et al. Chemical evolution of a bacterium's genome. Angew. Chem. Int. Ed. Engl. 50, 7109-7114 (2011)
23. Cox, E. C. Mutator gene studies in Escherichia coli: the mutT gene. Genetics 73, Suppl 73, 67-80 (1973)
24. Hibbert, E. G. et al. Directed evolution of transketolase activity on nonphosphorylated substrates. J. Biotechnol. 131, 425-432 (2007) (Pubitemid 47464092)
25. Chen, L. H. et al. 4-Oxalocrotonate tautomerase, an enzyme composed of 62 amino acid residues per monomer. J. Biol. Chem. 267, 17716-17721 (1992)
26. Simon, G. et al. Amino acid precursors for the detection of transketolase activity in Escherichia coli auxotrophs. Bioorg. Med. Chem. Lett. 19, 3767-3770 (2009)
27. Datsenko, K. A. &Wanner, B. L. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl. Acad. Sci. U. S. A. 97, 6640-6645 (2000). (Pubitemid 30412767)