1887

Abstract

The gene ( ) encoding an oxygen-labile fumarase of has been cloned and sequenced. The structural gene (1542 bp) encodes a product (FumA) of 56788 containing 514 amino acid residues. The amino acid sequence is 23% identical (37% similar) to FumA and FumB, the labile [4Fe-4S]-containing fumarases (Class I enzymes) of . It exhibits no significant similarity to FumC and CitG, the stable fumarases (Class II enzymes) of and (respectively). Enzymological studies indicated that FumA resembles the iron-sulphur-containing fumarases in being dimeric ( 2 × 58500), oxygen labile and partially reactivated by Feplus DTT. The gene is the first gene encoding a Class I fumarase to be characterized in any organism other than . Enzymological and DNA-hybridization studies further indicated that resembles in containing an oxygen-stable fumarase (Class II enzyme). Sequence comparisons revealed significant similarities between the Class I fumarases and the products of adjacent open-reading frames ( and ) located upstream of the macromolecular synthesis operon (--) at 67 min in the linkage map. Located downstream of , there is an unidentified gene (), which is homologous to the rhizobial genes involved in the initiation of root nodule formation.

Loading

Article metrics loading...

/content/journal/micro/10.1099/00221287-139-3-403
1993-03-01
2024-04-18
Loading full text...

Full text loading...

/deliver/fulltext/micro/139/3/mic-139-3-403.html?itemId=/content/journal/micro/10.1099/00221287-139-3-403&mimeType=html&fmt=ahah

References

  1. Acuña G., Ebeling S., Hennecke H. 1991; Cloning, sequencing, and mutational analysis of theBradyrhizobium japonicum fumC-like gene: evidence for the existence of two different fumarases. Journal of General Microbiology 137:991–1000
    [Google Scholar]
  2. Aimi J., Badylak J., Williams J., Chen Z., Zalkin H., Dixon J. E. 1990; Cloning of a cDNA encoding adenylosuccinate lyase by functional complementation inEscherichia coli. Journal of Biological Chemistry 265:9011–9014
    [Google Scholar]
  3. Bell P. J., Andrews S. C., Sivak M. N., Guest J. R. 1989; Nucleotide sequence of the FNR-regulated fumarase gene(fumB) ofEscherichia coliK12. Journal of Bacteriology 171:3494–3503
    [Google Scholar]
  4. Bradford M. M. 1976; A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein dye-binding. Analytical Biochemistry 72:248–253
    [Google Scholar]
  5. Buckel W. 1992; Unusual dehydrations in anaerobic bacteria. FEMS Microbiology Reviews 88:211–232
    [Google Scholar]
  6. Bullock W. O., Fernandez J. M., Short J. M. 1987; XLl-Blue: A high efficiency plasmid transforming recA Escherichia coli strain with β-galactosidase selection. Biotechniques 5:376–379
    [Google Scholar]
  7. Cammack R. 1991; Iron-sulphur clusters in enzymes - thitalices and variations. Advances in Organic Chemistry 38:1–24
    [Google Scholar]
  8. Cole S. T., Guest J. R. 1980; Genetic and physical characterization of lambda transducing phages (λfrdA) containing the fumarate reductase gene ofEscherichia coliK12. Molecular and General Genetics 178:409–418
    [Google Scholar]
  9. Devereux J., Haeberli P., Smithies O. 1984; A comprehensive set of sequence-analysis programs for the VAX. Nucleic Acids Research 12:387–395
    [Google Scholar]
  10. Downie A. 1991; A nod of recognition. Current Biology 1:382–384
    [Google Scholar]
  11. Egelhoff T. T., Fisher R. F., Jacobs T. W., Mulligan J. T., Long S. R. 1985; Nucleotide sequence of Rhizobium meliloti 1021 nodulation genes: nodD is read divergently from nodABC. DNA 4:241–248
    [Google Scholar]
  12. Feavers I. M., Foulkes J., Setlow B., Sun D., Nicholson W., Setlow P., Moir A. 1990; The regulation of the gerA spore germination operon of Bacillus subtilis. Molecular Microbiology 4:275–282
    [Google Scholar]
  13. Fisher R. F., Long S. R. 1992; Rhizobium-plant signal exchange. Nature; London: 357655–660
    [Google Scholar]
  14. Flint D. H., Emptage M. H., Guest J. R. 1989; Fumarase A from E.coli contains a [4Fe-4S] cluster. Journal of Inorganic Biochemistry 36:306
    [Google Scholar]
  15. Flint D. H., Emptage M. H., Guest J. R. 1989; Fumarase A from Escherichia coli: purification and characterization as an iron-sulfur cluster containing enzyme. Biochemistry 31:10331–10337
    [Google Scholar]
  16. Goethals K., Gao M., Tomekpe K., Van Montagu M., Holsters M. 1989; Common nodABC genes in NodW locus 1 of Azorhizobium caulinodans: nucleotide sequence and plant inducible expression. Molecular and General Genetics 219:289–298
    [Google Scholar]
  17. Guest J. R., Roberts R. E. 1983; Cloning, mapping and expression of the fumarase gene of Escherichia coli K-12. Journal of Bacteriology 153:588–596
    [Google Scholar]
  18. Guest J. R., Russell G. C. 1992; Complexes and complexities of the citric acid cycle in Escherichia coli. Current Topics in Cellular Regulation 33:231–247
    [Google Scholar]
  19. Guest J. R., Miles J. S., Roberts R. E., Woods S. A. 1985; The fumarase genes of Escherichia coli: location of the fumB gene and discovery of a new gene (fumC). Journal of General Microbiology 131:2971–2984
    [Google Scholar]
  20. Guest J. R., Green J., Spiro S., Prodromou C., Sharrocks A. D. 1990; Regulation of gene expression by oxygen in Escherichia coli. The Molecular Basis of Bacterial Metabolism pp. 134–145, Edited by. Hauska G., Thauer R. Berlin: Springer-Verlag;
    [Google Scholar]
  21. Harwood C. R., Williams D. M., Lovett P. S. 1983; Nucleotide sequence of a Bacillus pumilis gene specifying chloramphenicol acetyltransferase. Gene 24:163–169
    [Google Scholar]
  22. He B., Smith J. M., Zalkin H. 1992; Escherichia coli purB gene: nucleotide sequence and regulation by purR. Journal of Bacteriology 174:130–136
    [Google Scholar]
  23. Henson J. M., Blake N. K., Marek L. 1987; The isolation of fumB mutants of Escherichia coli. Journal of General Microbiology 133:2631–2638
    [Google Scholar]
  24. Higgins D. G., Sharp P. M. 1988; clustal: a package for performing multiple sequence alignments on a microcomputer. Gene 73:237–244
    [Google Scholar]
  25. Higgins D. G., Sharp P. M. 1989; Fast and sensitive multiple sequence alignments on a microcomputer. Cabios 5:151–153
    [Google Scholar]
  26. Hill R. L., Bradshaw R. A. 1969; Fumarase. Methods in Enzymology 13:91–99
    [Google Scholar]
  27. Kelly J. M., Scopes R. K. 1986; L-(+)-Tartrate dehydratase from Pseudomonas putida is an iron-sulphur enzyme. FEBS Letters 202:274–276
    [Google Scholar]
  28. Kinsella T. R., Doonan S. 1986; Nucleotide sequence of a cDNA coding for mitochondrial fumarase from human liver. Bioscience Reports 6:921–929
    [Google Scholar]
  29. Laemmli U. K. 1970; Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature; London: 227680–685
    [Google Scholar]
  30. Liao H., McKenzie T., Hageman R. 1986; Isolation of a thermostable enzyme variant by cloning and selection in a thermophile. Proceedings of the National Acaditalicy of Sciences of the United States of America 83:576–580
    [Google Scholar]
  31. Liochev S. I., Fridovich I. 1992; Fumarase C, the stable fumarase of Escherichia coli, is controlled by the soxRS regulon. Proceedings of the National Acaditalicy of Sciences of the United States of America 89:5892–5896
    [Google Scholar]
  32. Mallinder P. R., Pritchard A., Moir A. 1992; Cloning and characterization of a gene from Bacillus stearothermophilus var. non-diastaticus encoding a glycerol dehydrogenase. Gene 110: 916:
    [Google Scholar]
  33. McPherson M. J., Baron A. J., Jones K. M., Price G. J., Wootton J. C. 1988; Multiple interactions of lysine-128 of Escherichia coli glutamate dehydrogenase revealed by site-directed mutagenesis studies. Protein Engineering 2:147–152
    [Google Scholar]
  34. Miles J. S., Guest J. R. 1984; Complete nucleotide sequence of the fumarase gene (fumA) of Escherichia coli. Nucleic Acids Research 12:3631–3642
    [Google Scholar]
  35. Miles J. S., Guest J. R. 1985; Complete nucleotide sequence of the fumarase gene (citG) of Bacillus subtilis 168. Nucleic Acids Research 13:131–140
    [Google Scholar]
  36. Messing J. 1983; New M13 vectors for cloning. Methods in Enzymology 101:20–78
    [Google Scholar]
  37. Moir A. 1983; The isolation of lambda transducing phages carrying the citG and gerA genes of Bacillus subtilis. Journal of General Microbiology 129:303–310
    [Google Scholar]
  38. Moir A., Lafferty E., Smith D. A. 1979; Genetic analysis of spore germination mutants of Bacillus subtilis 168: the correlation of phenotype with map location. Journal of General Microbiology 111:165–180
    [Google Scholar]
  39. Moir A., Feavers I. M., Guest J. R. 1984; Characterization of the fumarase gene of Bacillus subtilis 168 cloned and expressed in Escherichia coli K12. Journal of General Microbiology 130:3009–3017
    [Google Scholar]
  40. Nagata S., Tanizawa K., Esaki N., Sakamoto Y., Oshima T., Tanaka H., Soda K. 1988; Gene cloning and sequence determination of leucine dehydrogenase from Bacillus stearothermophilus and structural comparisons with other NAD(P)+-dependent dehydrogenases. Biochemistry 27:9056–9062
    [Google Scholar]
  41. Nesin M., Lupski J. R., Svec P., Godson G. N. 1987; Possible new genes as revealed by molecular analysis of a 5-kb Escherichia coli chromosomal region 5′ to the rpsU-dnaG-rpoD macromolecular-synthesis operon. Gene 51:149–161
    [Google Scholar]
  42. Prodromou C., Artymiuk P. J., Guest J. R. 1992; The aconitase of Escherichia coli: nucleotide sequence of the aconitase gene and amino acid sequence similarity with mitochondrial aconitases, the iron-responsive-element-binding protein and isopropylmalate iso-merases. European Journal of Biochemistry 204:599–609
    [Google Scholar]
  43. Robbins A. H., Stout C. D. 1989a; The structure of aconitase. Proteins 5:289–312
    [Google Scholar]
  44. Robbins A. H., Stout C. D. 1989b; Structure of activated aconitase: formation of the [4Fe-4S] cluster in the crystal. Proceedings of the National Acaditalicy of Sciences of the United States of America 86:3639–3643
    [Google Scholar]
  45. Rosenthal E. R., Calvo J. M. 1990; The nucleotide sequence of leuC from Salmonella typhimurium. Nucleic Acids Research 18:3072
    [Google Scholar]
  46. Rossen L., Johnston A. W. B., Downie J. A. 1984; DNA sequence of the Rhizobium leguminosarum nodulation genes nodAB and C required for root hair curling. Nucleic Acids Research 12:9497–9508
    [Google Scholar]
  47. Rouault T. A., Tang C. K., Kaptain S., Burgess W. H., Haile D. J., Samaniego F., McBride W., Harford J. B., Klausner R. D. 1990; Cloning of the cDNA encoding an RNA regulatory protein -the human iron-responsive element-binding protein. Proceedings of the National Acaditalicy of Sciences of the United States of America 87:7958–7962
    [Google Scholar]
  48. Rutberg B., Hoch J. A. 1970; Citric acid cycle: gene-enzyme relationships in Bacillus subtilis. Journal of Bacteriology 104:826–833
    [Google Scholar]
  49. Sachettini J. C., Frazier M. W., Chiara D. C., Banaszak L. J., Grant G. A. 1988; Amino acid sequence of porcine heart fumarase. Biochemical and Biophysical Research Communications 153:435–440
    [Google Scholar]
  50. Sambrook J., Fritsch E. F., Maniatis T. 1989 Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.;
    [Google Scholar]
  51. Schmidt J., John M., Kondorosi E., Kondorosi A., Schell J. 1991; Recent progress in the elucidation of the function of nod A, B and C genes of Rhizobium meliloti. Israel Journal of Botany 40:165–169
    [Google Scholar]
  52. Schofield P. R., Watson J. M. 1986; DNA sequence of Rhizobium trifolii nodulation genes reveals a reiterated and potentially regulatory sequence preceding nodABC and nodFE. Nucleic Acids Research 14:2891–2903
    [Google Scholar]
  53. Schweiger G., Dutscho R., Buckel W. 1987; Purification of 2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans: an iron-sulfur protein. European Journal of Biochemistry 169:441–448
    [Google Scholar]
  54. Scott K. 1986; Conserved nodulation gene from the non-legume symbiont Bradyrhizobium sp. (Parasponia). Nucleic Acids Research 14:2905–2919
    [Google Scholar]
  55. Sharp R. J., Ahmad S. I., Munster A., Dowsett B., Atkinson T. 1986; The isolation and characterization of bacteriophages infecting obligately thermophilic strains of Bacillus. Journal of General Microbiology 132:1709–1722
    [Google Scholar]
  56. Shibata H., Gardiner W. E., Schwartzbach S. D. 1985; Purification, characterization, and immunological properties of fumarase from Euglena gracilis var. bacillaris. Journal of Bacteriology 164:762–768
    [Google Scholar]
  57. Smith M. C. M., Mountain A., Baumberg S. 1986; Sequence analysis of the Bacillus subtilis argC promoter region. Gene 49:53–60
    [Google Scholar]
  58. Staden R. 1980; A new computer method for the storage and manipulation of DNA gel reading data. Nucleic Acids Research 8:3673–3694
    [Google Scholar]
  59. Staden R. 1982; An interactive graphics program for comparing and aligning nucleic acid and amino acid sequences. Nucleic Acids Research 10:2951–2961
    [Google Scholar]
  60. Staden R. 1984; Graphic methods to determine the function of nucleic acid sequences. A summary of analyseq options. Nucleic Acids Research 12:505–519
    [Google Scholar]
  61. Staden R., McLachlan A. D. 1982; Codon preference and its use in identifying protein coding regions in long DNA sequences. Nucleic Acids Research 10:141–156
    [Google Scholar]
  62. Suzuki T., Sato M., Yoshida T., Tuboi S. 1989; Rat liver mitochondrial and cytosolic fumarases with identical amino acid sequences are encoded from a single gene. Journal of Biological Chemistry 264:2581–2586
    [Google Scholar]
  63. Switzer R. L. 1989; Non-redox roles for iron-sulfur clusters in enzymes. Biofactors 2:77–86
    [Google Scholar]
  64. Teller J. K., Smith R. J., McPherson M. J., Engel P. C., Guest J. R. 1992; The glutamate dehydrogenase of Clostridium symbiosum: cloning by polymerase chain reaction, sequence analysis and over-expression in Escherichia coli. European Journal of Biochemistry 206:151–159
    [Google Scholar]
  65. Torok I., Kondorosi E., Stepkowski T., Posfai J., Kondorosi A. K. 1984; Nucleotide sequence of Rhizobium meliloti nodulation genes. Nucleic Acids Research 12:9509–9522
    [Google Scholar]
  66. Ueda Y., Yumoto N., Tokushige M., Fukui K., Ohya-Nishiguchi H. 1991; Purification and characterization of two types of fumarase from Escherichia coli. Journal of Biochemistry 109:728–733
    [Google Scholar]
  67. Woods S. A., Guest J. R. 1987; Differential roles of the Escherichia coli fumarases and fnr-dependent expression of fumarase B and aspartase. FitalicS Microbiology Letters 48:219–224
    [Google Scholar]
  68. Woods S. A., Miles J. S., Roberts R. E., Guest J. R. 1986; Structural and functional relationships between fumarase and aspartase. Biochemical Journal 237:547–557
    [Google Scholar]
  69. Woods S. A., Schwartzbach S. D., Guest J. R. 1988a; Two biochemically distinct classes of fumarase in Escherichia coli. Biochimica et Biophysica Acta 954:14–26
    [Google Scholar]
  70. Woods S. A., Miles J. S., Guest J. R. 1988b; Sequence homologies between arginosuccinase, aspartase and fumarase: a family of structurally-related enzymes. FitalicS Microbiology Letters 51:181–186
    [Google Scholar]
  71. Wu M., Tzagoloff A. 1987; Mitochondrial and cytoplasmic fumarases in Saccharomyces cerevisiae are encoded by a single nuclear gene FUM1. Journal of Biological Chemistry 262:12275–12282
    [Google Scholar]
  72. Yumoto N., Tokushige M. 1988; Characterization of multiple fumarase proteins in Escherichia coli. Biochemical and Biophysical Research Communications 153:1236–1243
    [Google Scholar]
  73. Zheng L., Andrews P. C., Hermodson M. A., Dixon J. E., Zalkin H. 1990; Cloning and structural characterization of porcine heart aconitase. Journal of Biological Chemistry 265:2814–2821
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/micro/10.1099/00221287-139-3-403
Loading
/content/journal/micro/10.1099/00221287-139-3-403
Loading

Data & Media loading...

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error