Generation and characterization of functional mutants in the translation initiation factor IF1 of Escherichia coli

European Journal of Biochemistry

Volumn 271, Issue 3, 2004, Pages 534-544

  Croitoru, Victor ^a   Bucheli Witschel, Margarete ^a,b   Hägg, Peter ^a   Abdulkarim, Farhad ^a   Isaksson, Leif A ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

^b SWISS FEDERAL INSTITUTE OF AQUATIC SCIENCE AND TECHNOLOGY   (Switzerland)

Author keywords

Initiation factor IF1; Mutagenesis; Translation initiation

Indexed keywords

ARGININE; ASPARTIC ACID; BACTERIAL PROTEIN; INITIATION FACTOR 1; LEUCINE; MUTANT PROTEIN;

ALLELE; AMINO ACID SUBSTITUTION; ARTICLE; BACTERIAL CHROMOSOME; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL MUTATION; BACTERIAL STRAIN; BACTERIUM CULTURE; BACTERIUM MUTANT; CELL VIABILITY; COLD SENSITIVITY; CONTROLLED STUDY; ESCHERICHIA COLI; GENE DELETION; GENE MUTATION; GENETIC RECOMBINATION; GROWTH RATE; NONHUMAN; PHENOTYPE; PLASMID; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; SITE DIRECTED MUTAGENESIS; WILD TYPE;

BASE SEQUENCE; CHROMOSOMES, BACTERIAL; DNA PRIMERS; ESCHERICHIA COLI; EUKARYOTIC INITIATION FACTORS; GENES, BACTERIAL; MODELS, MOLECULAR; MUTAGENESIS, SITE-DIRECTED;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA; PROKARYOTA;

EID: 0842265778     PISSN: 00142956     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1432-1033.2003.03954.x     Document Type: Article

References (40)

1. Hershey, J.W. (1987) Protein synthesis. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology (Neidhardt, F.C., ed.), pp. 613-647. ASM Press, Washington, DC.
2. Grunberg-Manago, M. (1996) Regulation of the expression of aminoacyl-tRNA synthetases and translation factors. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology (Neidhardt, F.C., ed.), pp. 1432-1457. ASM Press, Washington, DC.
3. Boelens, R. & Gualerzi, C.O. (2002) Structure and function of bacterial initiation factors. Curr. Protein Pept. Sci. 3, 107-119.
4. Cummings, H.S. & Hershey, J.W. (1994) Translation initiation factor IF1 is essential for cell viability in Escherichia coli. J. Bacteriol. 176, 198-205.
5. Sette, M., van Tilborg, P., Spurio, R., Kaptein, R., Paci, M., Gualerzi, C.O. & Boelens, R. (1997) The structure of the translational initiation factor IF1 from E. coli contains an oligomer-binding motif. EMBO J. 16, 1436-1443.
6. Pon, C.L., Wittmann-Liebold, B. & Gualerzi, C. (1979) Structure-function relationships in Escherichia coli initiation factors. II. Elucidation of the primary structure of initiation factor IF-1. FEBS Lett. 101, 157-160.
7. Paci, M., Pon, C. & Gualerzi, C. (1983) High resolution 1H-n.m.r. study of the interaction between initiation factor IF1 and 30S ribosomal subunits. EMBO J. 2, 521-526.
8. Celano, B., Pawlik, R.T. & Gualerzi, C.O. (1988) Interaction of Escherichia coli translation-initiation factor IF-1 with ribosomes. Eur. J. Biochem. 178, 351-355.
9. Zucker, F.H. & Hershey, J.W. (1986) Binding of Escherichia coli protein synthesis initiation factor IF1-30S ribosomal subunits measured by fluorescence polarization. Biochemistry 25, 3682-3690.
10. Pon, C.L. & Gualerzi, C.O. (1984) Mechanism of protein biosynthesis in prokaryotic cells. Effect of initiation factor IF1 on the initial rate of 30 S initiation complex formation. FEBS Lett. 175, 203-207.
11. Wintermeyer, W. & Gualerzi, C. (1983) Effect of Escherichia coli initiation factors on the kinetics of N-Acphe-tRNAPhe binding to 30S ribosomal subunits. A fluorescence stopped-flow study. Biochemistry 22, 690-694.
12. Dahlquist, K.D. & Puglisi, J.D. (2000) Interaction of translation initiation factor IF1 with the E. coli ribosomal A site. J. Mol. Biol. 299, 1-15.
13. Moazed, D., Samaha, R.R., Gualerzi, C. & Noller, H.F. (1995) Specific protection of 16S rRNA by translational initiation factors. J. Mol. Biol. 248, 207-210.
14. Boileau, G., Butler, P., Hershey, J.W. & Traut, R.R. (1983) Direct cross-links between initiation factors 1, 2, and 3 and ribosomal proteins promoted by 2-iminothiolane. Biochemistry 22, 3162-3170.
15. Brock, S., Szkaradkiewicz, K. & Sprinzl, M. (1998) Initiation factors of protein biosynthesis in bacteria and their structural relationship to elongation and termination factors. Mol. Microbiol. 29, 409-417.
16. Carter, A.P., Clemons, W.M. Jr, Brodersen, D.E., Morgan-Warren, R.J., Hartsch, T., Wimberly, B.T. & Ramakrishnan, V. (2001) Crystal structure of an initiation factor bound to the 30S ribosomal subunit. Science 291, 498-501.
17. Gualerzi, C.O., Spurio, R., La Teana, A., Calogero, R., Celano, B. & Pon, C.L. (1989) Site-directed mutagenesis of Escherichia coli translation initiation factor IF1. Identification of the amino acid involved in its ribosomal binding and recycling. Protein Eng. 3, 133-138.
18. Bachmann, B.J. (1987) Derivations and genotypes of some mutant derivatives of Escherichia coli K-12. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology (Neidhardt, F.C., ed.), pp. 1190-1219. ASM Press, Washington, D.C.
19. Woodcock, D.M., Crowther, P.J., Doherty, J., Jefferson, S., DeCruz, E., Noyer-Weidner, M., Smith, S.S., Michael, M.Z. & Graham, M.W. (1989) Quantitative evaluation of Escherichia coli host strains for tolerance to cytosine methylation in plasmid and phage recombinants. Nucleic Acids Res. 17, 3469-3478.
20. Senn, H., Lendenmann, U., Snozzi, M., Hamer, G. & Egli, T. (1994) The growth of Escherichia coli in glucose-limited chemostat cultures: a re-examination of the kinetics. Biochim. Biophys. Acta. 1201, 424-436.
21. Sambrook, J., Fritsch, E.F. & Maniatis, T. (1989) Molecular Cloning: a Laboratory Manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
22. Miller, J.H. (1992) A Short Course in Bacterial Genetics. Cold Spring Harbor Laboratory Press, Cold Spring Habor, NY.
23. Sancar, A., Hack, A.M. & Rupp, W.D. (1979) Simple method for identification of plasmid-coded proteins. J. Bacteriol. 137, 692-693.
24. Schagger, H. & von Jagow, G. (1987) Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal. Biochem. 166, 368-379.
25. Lerner, C.G., Gulati, P.S. & Inouye, M. (1995) Cold-sensitive conditional mutations in Era, an essential Escherichia coli GTPase, isolated by localized random polymerase chain reaction mutagenesis. FEMS Microbiol. Lett. 126, 291-298.
26. Singer, M., Baker, T.A., Schnitzler, G., Deischel, S.M., Goel, M., Dove, W., Jaacks, K.J., Grossman, A.D., Erickson, J.W. & Gross, C.A. (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol. Rev. 53, 1-24.
27. Nichols, B.P., Shafiq, O. & Meiners, V. (1998) Sequence analysis of Tn10 insertion sites in a collection of Escherichia coli strains used for genetic mapping and strain construction. J. Bacteriol. 180, 6408-6411.
28. Link, A.J., Phillips, D. & Church, G.M. (1997) Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J. Bacteriol. 179, 6228-6237.
29. Borovkov, A.Y. & Rivkin, M.I. (1997) XcmI-containing vector for direct cloning of PCR products. Biotechniques 22, 812-814.
30. Berman, H.M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T.N., Weissig, H., Shindyalov, I.N. & Bourne, P.E. (2000) The Protein Data Bank. Nucleic Acids Res. 28, 235-242.
31. Kyrpides, N.C. & Woese, C.R. (1998) Universally conserved translation initiation factors. Proc. Natl Acad. Sci. USA 95, 224-228.
32. Karimi, R., Pavlov, M.Y., Heurgue-Hamard, V., Buckingham, R.H. & Ehrenberg, M. (1998) Initiation factors IF1 and IF2 synergistically remove peptidyl-tRNAs with short polypeptides from the P-site of translating Escherichia coli ribosomes. J. Mol. Biol. 281, 241-252.
33. Sorensen, H.P., Hedegaard, J., Sperling-Petersen, H.U. & Mortensen, K.K. (2001) Remarkable conservation of translation initiation factors: IF1/ eIF1A and IF2/eIF5B are universally distributed phylogenetic markers. IUBMB Life 51, 321-327.
34. Moreno, J.M., Drskjotersen, L., Kristensen, J.E., Mortensen, K.K. & Sperling-Petersen, H.U. (1999) Characterization of the domains of E. coli initiation factor IF2 responsible for recognition of the ribosome. FEBS Lett. 455, 130-134.
35. Lata, K.R., Agrawal, R.K., Penczek, P., Grassucci, R., Zhu, J. & Frank, J. (1996) Three-dimensional reconstruction of the Escherichia coli 30 S ribosomal subunit in ice. J. Mol. Biol. 262, 43-52.
36. Spurio, R., Paci, M., Pawlik, R.T., La Teana, A., DiGiacco, B.V., Pon, C.L. & Gualerzi, C.O. (1991) Site-directed mutagenesis and NMR spectroscopic approaches to the elucidation of the structure-function relationships in translation initiation factors IF1 and IF3. Biochimie 73, 1001-1006.
37. Powers, T. & Noller, H.F. (1990) Dominant lethal mutations in a conserved loop in 16S rRNA. Proc. Natl Acad. Sci. USA 87, 1042-1046.
38. Powers, T. & Noller, H.F. (1991) A functional pseudoknot in 16S ribosomal RNA. EMBO J. 10, 2203-2214.
39. Powers, T. & Noller, H.F. (1993) Evidence for functional interaction between elongation factor Tu and 16S ribosomal RNA. Proc. Natl Acad. Sci. USA 90, 1364-1368.
40. O'Connor, M., Goringer, H.U. & Dahlberg, A.E. (1992) A ribosomal ambiguity mutation in the 530 loop of E. coli 16S rRNA. Nucleic Acids Res. 20, 4221-4227.