Homologs of aminoacyl-tRNA synthetases acylate carrier proteins and provide a link between ribosomal and nonribosomal peptide synthesis

Proceedings of the National Academy of Sciences of the United States of America

Volumn 107, Issue 33, 2010, Pages 14585-14590

  Mocibob, Marko ^a   Ivic, Nives ^b   Bilokapic, Silvija ^a   Maier, Timm ^c   Luic, Marija ^b   Ban, Nenad ^c   Weygand Durasevic, Ivana ^a  

^a UNIVERSITY OF ZAGREB   (Croatia)

^b RUDER BO KOVI INSTITUTE   (Croatia)

^c ETH ZURICH   (Switzerland)

Author keywords

AaRS homologs; Amino acid: carrier protein ligase; Noncanonical functions of aaRs; Seryl tRNA synthetase

Indexed keywords

AMINO ACID; AMINO ACID TRANSFER RNA LIGASE; CARRIER PROTEIN; PANTETHEINE PHOSPHATE; RIBOSOME PROTEIN; SERINE TRANSFER RNA LIGASE; TRANSFER RNA; ALANINE; BACTERIAL PROTEIN;

ADENYLATION; ARTICLE; BACTERIAL GENOME; CONFORMATIONAL TRANSITION; CRYSTAL STRUCTURE; ENZYME ACTIVE SITE; ENZYME ACTIVITY; METHANOGENIC ARCHAEON; NONHUMAN; NONRIBOSOMAL PEPTIDE SYNTHESIS; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN SYNTHESIS; RNA BINDING; RNA TRANSLATION; SEQUENCE HOMOLOGY; ACYLATION; AMINO ACID SEQUENCE; AMINOACYLATION; BIOCATALYSIS; BIOLOGICAL MODEL; BRADYRHIZOBIUM; CHEMICAL STRUCTURE; CHEMISTRY; GENETICS; KINETICS; METABOLISM; MOLECULAR GENETICS; PROTEIN TERTIARY STRUCTURE; RHIZOBIUM RADIOBACTER; RIBOSOME; X RAY CRYSTALLOGRAPHY;

BACTERIA (MICROORGANISMS);

ACYLATION; ALANINE; AMINO ACID SEQUENCE; AMINO ACYL-TRNA SYNTHETASES; BACTERIAL PROTEINS; BIOCATALYSIS; BRADYRHIZOBIUM; CARRIER PROTEINS; CATALYTIC DOMAIN; CRYSTALLOGRAPHY, X-RAY; KINETICS; MODELS, BIOLOGICAL; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; PEPTIDE BIOSYNTHESIS, NUCLEIC ACID-INDEPENDENT; PROTEIN STRUCTURE, TERTIARY; RHIZOBIUM RADIOBACTER; RIBOSOMES; SEQUENCE HOMOLOGY, AMINO ACID; SERINE-TRNA LIGASE; TRANSFER RNA AMINOACYLATION;

EID: 77957079227     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1007470107     Document Type: Article

References (33)

1. Ibba M, Söll D (2000) Aminoacyl-tRNA synthesis. Annu Rev Biochem 69:617-650.
2. Park SG, Ewalt KL, Kim S (2005) Functional expansion of aminoacyl-tRNA synthetases and their interacting factors: new perspectives on housekeepers. Trends Biochem Sci 30:569-574.
3. Schimmel P, Ribas de Pouplana L (2000) Footprints of aminoacyl-tRNA synthetases are everywhere. Trends Biochem Sci 25:205-207.
4. Geslain R, Ribas de Pouplana L (2004) Regulation of RNA function by aminoacylation and editing? Trends Genet 20:604-610.
5. Asp anticodon. Biochimie 87:847-861.
6. Sareen D, Steffek M, Newton GL, Fahey RC (2002) ATP-dependent L-cysteine:1D-myoinosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase, mycothiol biosynthesis enzyme MshC, is related to class I cysteinyl-tRNA synthetases. Biochemistry 41:6885-6890.
7. Roy H, Becker HD, Reinbolt J, Kern D (2003) When contemporary aminoacyl-tRNA synthetases invent their cognate amino acid metabolism. Proc Natl Acad Sci USA 100:9837-9842.
8. Garg RP, Qian XL, Alemany LB, Moran S, Parry RJ (2008) Investigations of valanimycin biosynthesis: elucidation of the role of seryl-tRNA. Proc Natl Acad Sci USA 105:6543-6547.
9. Zeng Y, Roy H, Patil PB, Ibba M, Chen S (2009) Characterization of two seryl-tRNA synthetases in albomycin-producing Streptomycessp. strain ATCC 700974. Antimicrob Agents Chemother 53:4619-4627.
10. Bilokapic S, et al. (2006) Structure of the unusual seryl-tRNA synthetase reveals a distinct zinc-dependent mode of substrate recognition. EMBO J 25:2498-2509.
11. Bilokapic S, et al. (2009) Idiosyncratic helix-turn-helix motif in Methanosarcina barkeri seryl-tRNA synthetase has a critical architectural role. J Biol Chem 284:10706-10713.
12. Jaric J, et al. (2009) Identification of amino acids in the N-terminal domain of atypical methanogenic-type seryl-tRNA synthetase critical for tRNA recognition. J Biol Chem 284:30643-30651.
13. Finking R, Marahiel MA (2004) Biosynthesis of nonribosomal peptides. Annu Rev Microbiol 58:453-488.
14. Jakubowski H (1998) Aminoacylation of coenzyme A and pantetheine by aminoacyl-tRNA synthetases: possible link between noncoded and coded peptide synthesis. Biochemistry 37:5147-5153.
15. Jakubowski H (2000) Amino acid selectivity in the aminoacylation of coenzyme A and RNA minihelices by aminoacyl-tRNA synthetases. J Biol Chem 275:34845-34848.
16. Francklyn CS, First EA, Perona JJ, Hou Y-M (2008) Methods for kinetic and thermodynamic analysis of aminoacyl-tRNA synthetases. Methods 44:100-118.
17. Woese CR, Olsen GJ, Ibba M, Söll D (2000) Aminoacyl-tRNA synthetases, the genetic code, and the evolutionary process. Microbiol Mol Biol R 64:202-236.
18. Bilokapic S, Rokov Plavec J, Ban N, Weygand-Durasevic I (2008) Structural flexibility of the methanogenic-type seryl-tRNA synthetase active site and its implication for specific substrate recognition. FEBS J 275:2831-2844.
19. Mercer AC, Burkart MD (2007) The ubiquitous carrier protein - a window to metabolite biosynthesis. Nat Prod Rep 24:750-773.
20. Hermanson GT (2008) Bioconjugate Techniques (Academic Press, London), 2nd ed, pp 183-184 pp 408-410.
21. Ser regions reveals differently utilized identity elements in yeast and methanogenic archaea. J Mol Biol 361:128-139.
22. May JJ, et al. (2005) Inhibition of the D-alanine:D-alanyl carrier protein ligase from Bacillus subtilis increases the bacterium's susceptibility to antibiotics that target the cell wall. FEBS J 272:2993-3003.
23. Drake EJ, Nicolai DA, Gulick AM (2006) Structure of the EntB multidomain nonribosomal peptide synthetase and functional analysis of its interaction with the EntE adenylation domain. Chem Biol 13:409-419.
24. O'Donoghue P, Luthey-Schulten Z (2003) On the evolution of structure in aminoacyl-tRNA synthetases. Microbiol Mol Biol R 67:550-573.
25. Sissler M, et al. (1999) An aminoacyl-tRNA synthetase paralog with a catalytic role in histidine biosynthesis. Proc Natl Acad Sci USA 96:8985-8990.
26. Ahel D, Slade D, Mocibob M, Söll D,Weygand-Durasevic I (2005) Selective inhibition of divergent seryl-tRNA synthetases by serine analogues. FEBS Lett 579:4344-4348.
27. Ribas de Pouplana L, Schimmel P (2000) A view into the origin of life: aminoacyl-tRNA synthetases. Cell Mol Life Sci 57:865-870.
28. Cheng YQ (2006) Deciphering the biosynthetic codes for the potent anti-SARS-CoV cyclodepsipeptide valinomycin in Streptomyces tsusimaensis ATCC 15141. ChemBio-Chem 7:471-477.
29. Geiger O, López-Lara IM (2002) Rhizobial acyl carrier proteins and their roles in the formation of bacterial cell-surface components that are required for the development of nitrogen-fixing root nodules on legume hosts. FEMS Microbiol Lett 208:153-162.
30. RajBhandary UL, Söll D (2008) Aminoacyl-tRNAs, the bacterial cell envelope, and antibiotics. Proc Natl Acad Sci USA 105:5285-5286.
31. Ibba M, Söll D (2004) Aminoacyl-tRNAs: setting the limits of the genetic code. Genes Dev 18:731-738.
32. Francklyn CS, Minajigi A (2010) tRNA as an active chemical scaffold for diverse chemical transformations. FEBS Lett 584:366-375.
33. Weber T, Marahiel MA (2001) Exploring the domain structure of modular nonribosomal peptide synthetases. Structure 9:R3-R9.