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. 1996 Jul;178(14):4281–4288. doi: 10.1128/jb.178.14.4281-4288.1996

Guanosine pentaphosphate synthetase from Streptomyces antibioticus is also a polynucleotide phosphorylase.

G H Jones 1, M J Bibb 1
PMCID: PMC178187  PMID: 8763958

Abstract

The gene for the enzyme guanosine pentaphosphate synthetase I (GPSI) from Streptomyces antibioticus has been cloned and sequenced. The cloned gene functioned as a template in the streptomycete coupled transcription-translation system and directed the synthesis of a protein with the properties expected for GPSI. Sequencing of the cloned gene identified an open reading frame of 740 amino acids whose amino terminal sequence corresponded to the N terminus of purified GPSI. The GPSI protein sequence was found to possess significant homology to polynucleotide phosphorylase from Escherichia coli. Indeed, like E. coli polynucleotide phosphorylase, purified GPSI was shown to catalyze the polymerization of ADP and the phosphorolysis of poly(A). However, the E. coli enzyme was unable to catalyze the synthesis of guanosine pentaphosphate under conditions in which GPSI was highly active in that reaction. Overexpression of the cloned gpsI gene in E. coli led to an increase in both polynucleotide phosphorylase and guanosine pentaphosphate synthetase activities in the cloning host. The polynucleotide phosphorylase activities of GPSI and of the E. coli enzyme were strongly inhibited by dCDP, but the pppGpp synthetase activity of GPSI was not inhibited and indeed was slightly stimulated by dCDP. These results strongly support the identity of GPSI as a bifunctional enzyme capable of both pppGpp synthesis and polynucleotide phosphorylase activities.

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Selected References

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  1. Bibb M. J., Findlay P. R., Johnson M. W. The relationship between base composition and codon usage in bacterial genes and its use for the simple and reliable identification of protein-coding sequences. Gene. 1984 Oct;30(1-3):157–166. doi: 10.1016/0378-1119(84)90116-1. [DOI] [PubMed] [Google Scholar]
  2. Borer P. N., Dengler B., Tinoco I., Jr, Uhlenbeck O. C. Stability of ribonucleic acid double-stranded helices. J Mol Biol. 1974 Jul 15;86(4):843–853. doi: 10.1016/0022-2836(74)90357-x. [DOI] [PubMed] [Google Scholar]
  3. Bradford M. M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 1976 May 7;72:248–254. doi: 10.1016/0003-2697(76)90527-3. [DOI] [PubMed] [Google Scholar]
  4. Cashel M. The control of ribonucleic acid synthesis in Escherichia coli. IV. Relevance of unusual phosphorylated compounds from amino acid-starved stringent strains. J Biol Chem. 1969 Jun 25;244(12):3133–3141. [PubMed] [Google Scholar]
  5. Causton H., Py B., McLaren R. S., Higgins C. F. mRNA degradation in Escherichia coli: a novel factor which impedes the exoribonucleolytic activity of PNPase at stem-loop structures. Mol Microbiol. 1994 Nov;14(4):731–741. doi: 10.1111/j.1365-2958.1994.tb01310.x. [DOI] [PubMed] [Google Scholar]
  6. Chakraburtty R., White J., Takano E., Bibb M. Cloning, characterization and disruption of a (p)ppGpp synthetase gene (relA) of Streptomyces coelicolor A3(2). Mol Microbiol. 1996 Jan;19(2):357–368. doi: 10.1046/j.1365-2958.1996.390919.x. [DOI] [PubMed] [Google Scholar]
  7. Choy H. A., Jones G. H. Phenoxazinone synthase from Streptomyces antibiotics: purification of the large and small enzyme forms. Arch Biochem Biophys. 1981 Oct 1;211(1):55–65. doi: 10.1016/0003-9861(81)90429-x. [DOI] [PubMed] [Google Scholar]
  8. Deutscher M. P. Promiscuous exoribonucleases of Escherichia coli. J Bacteriol. 1993 Aug;175(15):4577–4583. doi: 10.1128/jb.175.15.4577-4583.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Devereux J., Haeberli P., Smithies O. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):387–395. doi: 10.1093/nar/12.1part1.387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Godefroy T., Cohn M., Grunberg-Manago M. Kinetics of polymerization and phosphorolysis reactions of E. coli polynucleotide phosphorylase. Role of oligonucleotides in polymerization. Eur J Biochem. 1970 Feb;12(2):236–249. doi: 10.1111/j.1432-1033.1970.tb00843.x. [DOI] [PubMed] [Google Scholar]
  11. Guissani A., Portier C. Study on the structure-function relationship of polynucleotide phosphorylase: model of a proteolytic degraded polynucleotide phosphorylase. Nucleic Acids Res. 1976 Nov;3(11):3015–3024. doi: 10.1093/nar/3.11.3015. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Hanahan D. Studies on transformation of Escherichia coli with plasmids. J Mol Biol. 1983 Jun 5;166(4):557–580. doi: 10.1016/s0022-2836(83)80284-8. [DOI] [PubMed] [Google Scholar]
  13. Haseltine W. A., Block R., Gilbert W., Weber K. MSI and MSII made on ribosome in idling step of protein synthesis. Nature. 1972 Aug 18;238(5364):381–384. doi: 10.1038/238381a0. [DOI] [PubMed] [Google Scholar]
  14. Haseltine W. A., Block R. Synthesis of guanosine tetra- and pentaphosphate requires the presence of a codon-specific, uncharged transfer ribonucleic acid in the acceptor site of ribosomes. Proc Natl Acad Sci U S A. 1973 May;70(5):1564–1568. doi: 10.1073/pnas.70.5.1564. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Hernandez V. J., Bremer H. Escherichia coli ppGpp synthetase II activity requires spoT. J Biol Chem. 1991 Mar 25;266(9):5991–5999. [PubMed] [Google Scholar]
  16. Jones G. H. Activation of ATP:GTP 3'-pyrophosphotransferase (guanosine pentaphosphate synthetase) in Streptomyces antibioticus. J Bacteriol. 1994 Mar;176(5):1482–1487. doi: 10.1128/jb.176.5.1482-1487.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Jones G. H., Hopwood D. A. Molecular cloning and expression of the phenoxazinone synthase gene from Streptomyces antibioticus. J Biol Chem. 1984 Nov 25;259(22):14151–14157. [PubMed] [Google Scholar]
  18. Jones G. H. Purification and properties of ATP:GTP 3'-pyrophosphotransferase (guanosine pentaphosphate synthetase) from Streptomyces antibioticus. J Bacteriol. 1994 Mar;176(5):1475–1481. doi: 10.1128/jb.176.5.1475-1481.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Kelly K. S., Ochi K., Jones G. H. Pleiotropic effects of a relC mutation in Streptomyces antibioticus. J Bacteriol. 1991 Apr;173(7):2297–2300. doi: 10.1128/jb.173.7.2297-2300.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Kieser T., Melton R. E. Plasmid pIJ699, a multi-copy positive-selection vector for Streptomyces. Gene. 1988 May 15;65(1):83–91. doi: 10.1016/0378-1119(88)90419-2. [DOI] [PubMed] [Google Scholar]
  21. LITTAUER U. Z., KORNBERG A. Reversible synthesis of polyribonucleotides with an enzyme from Escherichia coli. J Biol Chem. 1957 Jun;226(2):1077–1092. [PubMed] [Google Scholar]
  22. Lucus-Lenard J. M., Cohen S. S. The inhibition of polynucleotide phosphorylase by certain substrate analogues. Biochim Biophys Acta. 1966 Sep;123(3):471–477. doi: 10.1016/0005-2787(66)90215-2. [DOI] [PubMed] [Google Scholar]
  23. Madu A. C., Jones G. H. Molecular cloning and in vitro expression of a silent phenoxazinone synthase gene from Streptomyces lividans. Gene. 1989 Dec 14;84(2):287–294. doi: 10.1016/0378-1119(89)90502-7. [DOI] [PubMed] [Google Scholar]
  24. Ochi K. Streptomyces relC mutants with an altered ribosomal protein ST-L11 and genetic analysis of a Streptomyces griseus relC mutant. J Bacteriol. 1990 Jul;172(7):4008–4016. doi: 10.1128/jb.172.7.4008-4016.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Pedersen F. S., Kjeldgaard N. O. Analysis of the relA gene product of Escherichia coli. Eur J Biochem. 1977 Jun 1;76(1):91–97. doi: 10.1111/j.1432-1033.1977.tb11573.x. [DOI] [PubMed] [Google Scholar]
  26. Py B., Causton H., Mudd E. A., Higgins C. F. A protein complex mediating mRNA degradation in Escherichia coli. Mol Microbiol. 1994 Nov;14(4):717–729. doi: 10.1111/j.1365-2958.1994.tb01309.x. [DOI] [PubMed] [Google Scholar]
  27. Régnier P., Grunberg-Manago M., Portier C. Nucleotide sequence of the pnp gene of Escherichia coli encoding polynucleotide phosphorylase. Homology of the primary structure of the protein with the RNA-binding domain of ribosomal protein S1. J Biol Chem. 1987 Jan 5;262(1):63–68. [PubMed] [Google Scholar]
  28. Strauch E., Takano E., Baylis H. A., Bibb M. J. The stringent response in Streptomyces coelicolor A3(2). Mol Microbiol. 1991 Feb;5(2):289–298. doi: 10.1111/j.1365-2958.1991.tb02109.x. [DOI] [PubMed] [Google Scholar]
  29. Svitil A. L., Cashel M., Zyskind J. W. Guanosine tetraphosphate inhibits protein synthesis in vivo. A possible protective mechanism for starvation stress in Escherichia coli. J Biol Chem. 1993 Feb 5;268(4):2307–2311. [PubMed] [Google Scholar]
  30. Sørensen M. A., Jensen K. F., Pedersen S. High concentrations of ppGpp decrease the RNA chain growth rate. Implications for protein synthesis and translational fidelity during amino acid starvation in Escherichia coli. J Mol Biol. 1994 Feb 18;236(2):441–454. doi: 10.1006/jmbi.1994.1156. [DOI] [PubMed] [Google Scholar]
  31. Takano E., Gramajo H. C., Strauch E., Andres N., White J., Bibb M. J. Transcriptional regulation of the redD transcriptional activator gene accounts for growth-phase-dependent production of the antibiotic undecylprodigiosin in Streptomyces coelicolor A3(2). Mol Microbiol. 1992 Oct;6(19):2797–2804. doi: 10.1111/j.1365-2958.1992.tb01459.x. [DOI] [PubMed] [Google Scholar]
  32. Thompson J., Rae S., Cundliffe E. Coupled transcription--translation in extracts of Streptomyces lividans. Mol Gen Genet. 1984;195(1-2):39–43. doi: 10.1007/BF00332721. [DOI] [PubMed] [Google Scholar]
  33. Tinoco I., Jr, Borer P. N., Dengler B., Levin M. D., Uhlenbeck O. C., Crothers D. M., Bralla J. Improved estimation of secondary structure in ribonucleic acids. Nat New Biol. 1973 Nov 14;246(150):40–41. doi: 10.1038/newbio246040a0. [DOI] [PubMed] [Google Scholar]
  34. Xiao H., Kalman M., Ikehara K., Zemel S., Glaser G., Cashel M. Residual guanosine 3',5'-bispyrophosphate synthetic activity of relA null mutants can be eliminated by spoT null mutations. J Biol Chem. 1991 Mar 25;266(9):5980–5990. [PubMed] [Google Scholar]

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