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. 1991 Dec;173(24):7765–7771. doi: 10.1128/jb.173.24.7765-7771.1991

Mapping, sequence, and apparent lack of function of araJ, a gene of the Escherichia coli arabinose regulon.

T Reeder 1, R Schleif 1
PMCID: PMC212566  PMID: 1744033

Abstract

We report the mapping, sequencing, and study of the physiological role of the fourth arabinose-inducible operon from Escherichia coli, araJ. It is located at 9 min on the chromosome and codes for a single 42-kDa protein that shows no significant homology to other known proteins. Destruction of the chromosomal araJ gene does not detectably affect either of the two arabinose transport systems, the ability of cells to grow on arabinose, or the induction kinetics of the araBAD operon, and thus the physiological role of AraJ, if any, remains unknown. We have also found a long open reading frame upstream of araJ. The sequence of this upstream open reading frame was found to be identical to the previously reported sequence of the sbcC gene (I. S. Naom, S. J. Morton, D. R. F. Leach, and R. G. Lloyd, Nucleic Acids Res. 17:8033-8044, 1989). The carboxyl region of SbcC has an amino acid sequence consistent with this region of SbcC forming an extended alpha-helical coiled-coil.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Ames G. F. Structure and mechanism of bacterial periplasmic transport systems. J Bioenerg Biomembr. 1988 Feb;20(1):1–18. doi: 10.1007/BF00762135. [DOI] [PubMed] [Google Scholar]
  2. Brissette J. L., Weiner L., Ripmaster T. L., Model P. Characterization and sequence of the Escherichia coli stress-induced psp operon. J Mol Biol. 1991 Jul 5;220(1):35–48. doi: 10.1016/0022-2836(91)90379-k. [DOI] [PubMed] [Google Scholar]
  3. Brown C. E., Hogg R. W. A second transport system for L-arabinose in Escherichia coli B-r controlled by the araC gene. J Bacteriol. 1972 Aug;111(2):606–613. doi: 10.1128/jb.111.2.606-613.1972. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. ENGLESBERG E., ANDERSON R. L., WEINBERG R., LEE N., HOFFEE P., HUTTENHAUER G., BOYER H. L-Arabinose-sensitive, L-ribulose 5-phosphate 4-epimerase-deficient mutants of Escherichia coli. J Bacteriol. 1962 Jul;84:137–146. doi: 10.1128/jb.84.1.137-146.1962. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. ENGLESBERG E. Enzymatic characterization of 17 L-arabinose negative mutants of Escherichia coli. J Bacteriol. 1961 Jun;81:996–1006. doi: 10.1128/jb.81.6.996-1006.1961. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Englesberg E., Irr J., Power J., Lee N. Positive control of enzyme synthesis by gene C in the L-arabinose system. J Bacteriol. 1965 Oct;90(4):946–957. doi: 10.1128/jb.90.4.946-957.1965. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Greenblatt J., Schleif R. Arabinose C protein: regulation of the arabinose operon in vitro. Nat New Biol. 1971 Oct 6;233(40):166–170. doi: 10.1038/newbio233166a0. [DOI] [PubMed] [Google Scholar]
  8. Hamilton C. M., Aldea M., Washburn B. K., Babitzke P., Kushner S. R. New method for generating deletions and gene replacements in Escherichia coli. J Bacteriol. 1989 Sep;171(9):4617–4622. doi: 10.1128/jb.171.9.4617-4622.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Hendrickson W., Stoner C., Schleif R. Characterization of the Escherichia coli araFGH and araJ promoters. J Mol Biol. 1990 Oct 20;215(4):497–510. doi: 10.1016/S0022-2836(05)80163-9. [DOI] [PubMed] [Google Scholar]
  10. Higgins C. F., Ames G. F., Barnes W. M., Clement J. M., Hofnung M. A novel intercistronic regulatory element of prokaryotic operons. Nature. 1982 Aug 19;298(5876):760–762. doi: 10.1038/298760a0. [DOI] [PubMed] [Google Scholar]
  11. Horazdovsky B. F., Hogg R. W. Genetic reconstitution of the high-affinity L-arabinose transport system. J Bacteriol. 1989 Jun;171(6):3053–3059. doi: 10.1128/jb.171.6.3053-3059.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Horazdovsky B. F., Hogg R. W. High-affinity L-arabinose transport operon. Gene product expression and mRNAs. J Mol Biol. 1987 Sep 5;197(1):27–35. doi: 10.1016/0022-2836(87)90606-1. [DOI] [PubMed] [Google Scholar]
  13. Huo L., Martin K. J., Schleif R. Alternative DNA loops regulate the arabinose operon in Escherichia coli. Proc Natl Acad Sci U S A. 1988 Aug;85(15):5444–5448. doi: 10.1073/pnas.85.15.5444. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Kohara Y., Akiyama K., Isono K. The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell. 1987 Jul 31;50(3):495–508. doi: 10.1016/0092-8674(87)90503-4. [DOI] [PubMed] [Google Scholar]
  15. Kolodrubetz D., Schleif R. L-arabinose transport systems in Escherichia coli K-12. J Bacteriol. 1981 Nov;148(2):472–479. doi: 10.1128/jb.148.2.472-479.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Kosiba B. E., Schleif R. Arabinose-inducible promoter from Escherichia coli. Its cloning from chromosomal DNA, identification as the araFG promoter and sequence. J Mol Biol. 1982 Mar 25;156(1):53–66. doi: 10.1016/0022-2836(82)90458-2. [DOI] [PubMed] [Google Scholar]
  17. Kreuzer P., Gärtner D., Allmansberger R., Hillen W. Identification and sequence analysis of the Bacillus subtilis W23 xylR gene and xyl operator. J Bacteriol. 1989 Jul;171(7):3840–3845. doi: 10.1128/jb.171.7.3840-3845.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Kyte J., Doolittle R. F. A simple method for displaying the hydropathic character of a protein. J Mol Biol. 1982 May 5;157(1):105–132. doi: 10.1016/0022-2836(82)90515-0. [DOI] [PubMed] [Google Scholar]
  19. Marck C. 'DNA Strider': a 'C' program for the fast analysis of DNA and protein sequences on the Apple Macintosh family of computers. Nucleic Acids Res. 1988 Mar 11;16(5):1829–1836. doi: 10.1093/nar/16.5.1829. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Naom I. S., Morton S. J., Leach D. R., Lloyd R. G. Molecular organization of sbcC, a gene that affects genetic recombination and the viability of DNA palindromes in Escherichia coli K-12. Nucleic Acids Res. 1989 Oct 25;17(20):8033–8045. doi: 10.1093/nar/17.20.8033. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Newbury S. F., Smith N. H., Robinson E. C., Hiles I. D., Higgins C. F. Stabilization of translationally active mRNA by prokaryotic REP sequences. Cell. 1987 Jan 30;48(2):297–310. doi: 10.1016/0092-8674(87)90433-8. [DOI] [PubMed] [Google Scholar]
  22. Niki H., Jaffé A., Imamura R., Ogura T., Hiraga S. The new gene mukB codes for a 177 kd protein with coiled-coil domains involved in chromosome partitioning of E. coli. EMBO J. 1991 Jan;10(1):183–193. doi: 10.1002/j.1460-2075.1991.tb07935.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Novotny C. P., Englesberg E. The L-arabinose permease system in Escherichia coli B/r. Biochim Biophys Acta. 1966 Mar 28;117(1):217–230. doi: 10.1016/0304-4165(66)90169-3. [DOI] [PubMed] [Google Scholar]
  24. Pearson W. R., Lipman D. J. Improved tools for biological sequence comparison. Proc Natl Acad Sci U S A. 1988 Apr;85(8):2444–2448. doi: 10.1073/pnas.85.8.2444. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Schleif R. An L-arabinose binding protein and arabinose permeation in Escherichia coli. J Mol Biol. 1969 Nov 28;46(1):185–196. doi: 10.1016/0022-2836(69)90065-5. [DOI] [PubMed] [Google Scholar]
  27. Scripture J. B., Voelker C., Miller S., O'Donnell R. T., Polgar L., Rade J., Horazdovsky B. F., Hogg R. W. High-affinity L-arabinose transport operon. Nucleotide sequence and analysis of gene products. J Mol Biol. 1987 Sep 5;197(1):37–46. doi: 10.1016/0022-2836(87)90607-3. [DOI] [PubMed] [Google Scholar]
  28. Smith C. L., Econome J. G., Schutt A., Klco S., Cantor C. R. A physical map of the Escherichia coli K12 genome. Science. 1987 Jun 12;236(4807):1448–1453. doi: 10.1126/science.3296194. [DOI] [PubMed] [Google Scholar]
  29. Stern M. J., Ames G. F., Smith N. H., Robinson E. C., Higgins C. F. Repetitive extragenic palindromic sequences: a major component of the bacterial genome. Cell. 1984 Jul;37(3):1015–1026. doi: 10.1016/0092-8674(84)90436-7. [DOI] [PubMed] [Google Scholar]
  30. Tabor S., Richardson C. C. DNA sequence analysis with a modified bacteriophage T7 DNA polymerase. Proc Natl Acad Sci U S A. 1987 Jul;84(14):4767–4771. doi: 10.1073/pnas.84.14.4767. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Walker J. E., Saraste M., Runswick M. J., Gay N. J. Distantly related sequences in the alpha- and beta-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes and a common nucleotide binding fold. EMBO J. 1982;1(8):945–951. doi: 10.1002/j.1460-2075.1982.tb01276.x. [DOI] [PMC free article] [PubMed] [Google Scholar]

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