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PMID: 3005231 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Isolation and sequence analysis of the gene (cpdB) encoding periplasmic 2',3'-cyclic phosphodiesterase.

Journal of bacteriology ·Vol. 165 ·No. 3 ·1986-03-00 ·Pages 1002-10

Liu J, Burns DM, Beacham IR

Abstract

The cpdB gene encodes a periplasmic 2',3'-cyclic phosphodiesterase (3'-nucleotidase). This enzyme has been purified previously and the gene is located at 96 min on the Escherichia coli chromosome. In this study the cpdB gene was cloned from ClaI-cleaved DNA, and the gene product was identified. DNA blotting experiments showed that the recombinant plasmid contains a deletion with respect to the expected genomic fragment of approximately 4 kilobases, which extends into the vector. Furthermore, the gene was absent from three other recombinant libraries. Together, these findings suggest the presence in the genome of an adjacent gene whose product is lethal when it is present on a multicopy plasmid. The nucleotide sequence of the cpdB gene was also determined. The 5' and 3' untranslated sequences contain characteristic sequences that are involved in the initiation and termination of transcription, including two possible promoters, one of which may contain two overlapping -10 sequences. A strong Shine-Dalgarno sequence is followed by an open reading frame which corresponds to a protein having a molecular weight of 70,954. The first 19 amino acid residues have the characteristics of a signal peptide. The 3' untranslated sequence contains two putative rho-independent transcription terminators having low thermodynamic stability.

MeSH Terms
2',3'-Cyclic-Nucleotide Phosphodiesterases/genetics Amino Acid Sequence Base Sequence Cloning, Molecular DNA, Bacterial Escherichia coli/enzymology,genetics Genes Genes, Bacterial Plasmids Promoter Regions, Genetic Terminator Regions, Genetic Transcription, Genetic
Chemicals
DNA, Bacterial 2',3'-Cyclic-Nucleotide Phosphodiesterases
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Liu J
Burns D M
Beacham I R
References (44)
44 references, click to expand
  1. Uridine diphosphate sugar hydrolase. Purification of enzyme and protein inhibitor.
    J Biol Chem. 1967 Apr 25;242(8):1944-54 PMID: 5337593
  2. A NEW CYCLIC PHOSPHODIESTERASE HAVING A 3'-NUCLEOTIDASE ACTIVITY FROM ESCHERICHIA COLI B. II. FURTHER STUDIES ON SUBSTRATE SPECIFICITY AND MODE OF ACTION OF THE ENZYME.
    J Biol Chem. 1964 Oct;239:3420-4 PMID: 14245397
  3. Escherichia coli K-12 F-prime factors, old and new.
    Bacteriol Rev. 1972 Dec;36(4):587-607 PMID: 4568765
  4. Improved estimation of secondary structure in ribonucleic acids.
    Nat New Biol. 1973 Nov 14;246(150):40-1 PMID: 4519026
  5. Synthesis and localisation of Escherichia coli UDP-glucose hydrolase (5'-nucleotidase), and demonstration of a cytoplasmic inhibitor of this enzyme in Salmonella typhimurium.
    Biochim Biophys Acta. 1975 Dec 5;411(2):216-21 PMID: 1103973
  6. Detection of specific sequences among DNA fragments separated by gel electrophoresis.
    J Mol Biol. 1975 Nov 5;98(3):503-17 PMID: 1195397
  7. A colony bank containing synthetic Col El hybrid plasmids representative of the entire E. coli genome.
    Cell. 1976 Sep;9(1):91-9 PMID: 788919
  8. DNA sequencing with chain-terminating inhibitors.
    Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463-7 PMID: 271968
  9. Construction and characterization of new cloning vehicles. II. A multipurpose cloning system.
    Gene. 1977;2(2):95-113 PMID: 344137
  10. Extracellular nucleases of pseudomonas BAL 31. III. Use of the double-strand deoxyriboexonuclease activity as the basis of a convenient method for the mapping of fragments of DNA produced by cleavage with restriction enzymes.
    Nucleic Acids Res. 1978 May;5(5):1445-64 PMID: 307230
  11. Complete nucleotide sequence of the Escherichia coli plasmid pBR322.
    Cold Spring Harb Symp Quant Biol. 1979;43 Pt 1:77-90 PMID: 383387
  12. Periplasmic enzymes in gram-negative bacteria.
    Int J Biochem. 1979;10(11):877-83 PMID: 389690
  13. Secretion and membrane localization of proteins in Escherichia coli.
    CRC Crit Rev Biochem. 1980;7(4):339-71 PMID: 6993100
  14. Isolation of Escherichia coli mutants (cpdB) deficient in periplasmic 2':3'-cyclic phosphodiesterase and genetic mapping of the cpdB locus.
    J Gen Microbiol. 1980 Jul;119(1):31-4 PMID: 6251162
  15. Nucleotide sequence of the E coli gene coding for dihydrofolate reductase.
    Nucleic Acids Res. 1980 May 24;8(10):2255-74 PMID: 6159575
  16. Termination of transcription and its regulation in the tryptophan operon of E. coli.
    Cell. 1981 Apr;24(1):10-23 PMID: 7016334
  17. Construction and characterization of new cloning vehicles. V. Mobilization and coding properties of pBR322 and several deletion derivatives including pBR327 and pBR328.
    Gene. 1981 Jan-Feb;13(1):25-35 PMID: 6263753
  18. On the hydrophobic nature of signal sequences.
    Eur J Biochem. 1981 May 15;116(2):419-22 PMID: 7250134
  19. Molecular cloning of the gene (ush) from Escherichia coli specifying periplasmic UDP-sugar hydrolase (5'-nucleotidase).
    Gene. 1980 Dec;12(3-4):281-6 PMID: 6265322
  20. Secretion and processing of ribose-binding protein in Escherichia coli.
    J Bacteriol. 1982 Feb;149(2):789-92 PMID: 7035438
  21. A modified pBR322 vector with improved properties for the cloning, recovery, and sequencing of blunt-ended DNA fragments.
    Gene. 1982 Feb;17(2):189-96 PMID: 6282713
  22. Characterization of translational initiation sites in E. coli.
    Nucleic Acids Res. 1982 May 11;10(9):2971-96 PMID: 7048258
  23. Role of positive charge on the amino-terminal region of the signal peptide in protein secretion across the membrane.
    Proc Natl Acad Sci U S A. 1982 Jun;79(11):3438-41 PMID: 7048305
  24. Rate of translation and kinetics of processing of newly synthesized molecules of two major outer-membrane proteins, the OmpA and OmpF proteins, of Escherichia coli K12.
    Eur J Biochem. 1982 Jun;124(3):577-83 PMID: 7049698
  25. Versatile low-copy-number plasmid vectors for cloning in Escherichia coli.
    Gene. 1982 Jun;18(3):335-41 PMID: 6290337
  26. High-level expression of an interferon alpha 2 gene cloned in phage M13mp7 and subsequent purification with a monoclonal antibody.
    Proc Natl Acad Sci U S A. 1982 Sep;79(18):5455-9 PMID: 6752948
  27. Oligonucleotide-directed mutagenesis as a general and powerful method for studies of protein function.
    Proc Natl Acad Sci U S A. 1982 Nov;79(21):6409-13 PMID: 6983070
  28. Patterns of amino acids near signal-sequence cleavage sites.
    Eur J Biochem. 1983 Jun 1;133(1):17-21 PMID: 6852022
  29. Effects of the complete removal of basic amino acid residues from the signal peptide on secretion of lipoprotein in Escherichia coli.
    J Biol Chem. 1983 Jun 10;258(11):7141-8 PMID: 6343386
  30. Compilation and analysis of Escherichia coli promoter DNA sequences.
    Nucleic Acids Res. 1983 Apr 25;11(8):2237-55 PMID: 6344016
  31. Codon usage and transfer RNA contents: organism-specific codon-choice patterns in reference to the isoacceptor contents.
    Cold Spring Harb Symp Quant Biol. 1983;47 Pt 2:1087-97 PMID: 6345068
  32. New M13 vectors for cloning.
    Methods Enzymol. 1983;101:20-78 PMID: 6310323
  33. Mechanisms of protein localization.
    Microbiol Rev. 1983 Sep;47(3):313-44 PMID: 6355805
  34. Characterization of the ush gene of Escherichia coli and its protein products.
    Gene. 1983 Nov;25(2-3):343-53 PMID: 6363215
  35. Nucleotide sequence of the phoS gene, the structural gene for the phosphate-binding protein of Escherichia coli.
    J Bacteriol. 1984 Mar;157(3):909-17 PMID: 6365894
  36. A method for the ligation of DNA following isolation from low melting temperature agarose.
    Anal Biochem. 1983 Nov;135(1):48-51 PMID: 6670747
  37. How signal sequences maintain cleavage specificity.
    J Mol Biol. 1984 Feb 25;173(2):243-51 PMID: 6423828
  38. A computer algorithm for testing potential prokaryotic terminators.
    Nucleic Acids Res. 1984 May 25;12(10):4411-27 PMID: 6374619
  39. Positive selection vectors: a small plasmid vector useful for the direct selection of Sau3A-generated overlapping DNA fragments.
    Gene. 1984 Mar;27(3):323-5 PMID: 6329908
  40. Structural analysis of the dnaA and dnaN genes of Escherichia coli.
    Gene. 1984 May;28(2):159-70 PMID: 6234204
  41. Compilation of published signal sequences.
    Nucleic Acids Res. 1984 Jul 11;12(13):5145-64 PMID: 6379599
  42. Export of protein in bacteria.
    Microbiol Rev. 1984 Dec;48(4):290-8 PMID: 6394976
  43. A NEW CYCLIC PHOSPHODIESTERASE HAVING A 3'-NUCLEOTIDASE ACTIVITY FROM ESCHERICHIA COLI B. I. PURIFICATION AND SOME PROPERTIES OF THE ENZYME.
    J Biol Chem. 1964 Oct;239:3412-9 PMID: 14245396
  44. The 5'-nucleotidase of Escherichia coli. II. Surface localization and purification of the Escherichia coli 5'-nucleotidase inhibitor.
    J Biol Chem. 1967 Sep 10;242(17):3905-11 PMID: 5341266
Article Info
Journal
Journal of bacteriology
Abbr.
J Bacteriol
ISSN
0021-9193
DOI
10.1128/jb.165.3.1002-1010.1986
Published
1986-03-00
Pages
1002-10
Language
English
Region
United States
NLM ID
2985120R
PMCID
PMC214528
Subset
IM
Databases
GENBANK
M13464
External Links
PubMed source DOI: 10.1128/jb.165.3.1002-1010.1986 PMC Full Text View journal details
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