Abstract
2-Oxo-1,2-dihydroquinoline 8-monooxygenase, an enzyme involved in quinoline degradation by Pseudomonas putida 86, had been identified as a class IB two-component nonheme iron oxygenase based on its biochemical and biophysical properties (B. Rosche, B. Tshisuaka, S. Fetzner, and F. Lingens, J. Biol. Chem. 270:17836-17842, 1995). The genes oxoR and oxoO, encoding the reductase and the oxygenase components of the enzyme, were sequenced and analyzed. oxoR was localized approximately 15 kb downstream of oxoO. Expression of both genes was detected in a recombinant Pseudomonas strain. In the deduced amino acid sequence of the NADH:(acceptor) reductase component (OxoR, 342 amino acids), putative binding sites for a chloroplast-type [2Fe-2S] center, for flavin adenine dinucleotide, and for NAD were identified. The arrangement of these cofactor binding sites is conserved in all known class IB reductases. A dendrogram of reductases confirmed the similarity of OxoR to other class IB reductases. The oxygenase component (OxoO, 446 amino acids) harbors the conserved amino acid motifs proposed to bind the Rieske-type [2Fe-2S] cluster and the mononuclear iron. In contrast to known class IB oxygenase components, which are composed of differing subunits, OxoO is a homomultimer, which is typical for class IA oxygenases. Sequence comparison of oxygenases indeed revealed that OxoO is more related to class IA than to class IB oxygenases. Thus, 2-oxo-1,2-dihydroquinoline 8-monooxygenase consists of a class IB-like reductase and a class IA-like oxygenase. These results support the hypothesis that multicomponent enzymes may be composed of modular elements having different phylogenetic origins.
Full Text
The Full Text of this article is available as a PDF (212.5 KB).
Selected References
These references are in PubMed. This may not be the complete list of references from this article.
- Bläse M., Bruntner C., Tshisuaka B., Fetzner S., Lingens F. Cloning, expression, and sequence analysis of the three genes encoding quinoline 2-oxidoreductase, a molybdenum-containing hydroxylase from Pseudomonas putida 86. J Biol Chem. 1996 Sep 20;271(38):23068–23079. doi: 10.1074/jbc.271.38.23068. [DOI] [PubMed] [Google Scholar]
- Brunel F., Davison J. Cloning and sequencing of Pseudomonas genes encoding vanillate demethylase. J Bacteriol. 1988 Oct;170(10):4924–4930. doi: 10.1128/jb.170.10.4924-4930.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Correll C. C., Batie C. J., Ballou D. P., Ludwig M. L. Phthalate dioxygenase reductase: a modular structure for electron transfer from pyridine nucleotides to [2Fe-2S]. Science. 1992 Dec 4;258(5088):1604–1610. doi: 10.1126/science.1280857. [DOI] [PubMed] [Google Scholar]
- Dehmel U., Engesser K. H., Timmis K. N., Dwyer D. F. Cloning, nucleotide sequence, and expression of the gene encoding a novel dioxygenase involved in metabolism of carboxydiphenyl ethers in Pseudomonas pseudoalcaligenes POB310. Arch Microbiol. 1995 Jan;163(1):35–41. doi: 10.1007/BF00262201. [DOI] [PubMed] [Google Scholar]
- Fetzner S., Müller R., Lingens F. A novel metabolite in the microbial degradation of 2-chlorobenzoate. Biochem Biophys Res Commun. 1989 Jun 15;161(2):700–705. doi: 10.1016/0006-291x(89)92656-9. [DOI] [PubMed] [Google Scholar]
- Haak B., Fetzner S., Lingens F. Cloning, nucleotide sequence, and expression of the plasmid-encoded genes for the two-component 2-halobenzoate 1,2-dioxygenase from Pseudomonas cepacia 2CBS. J Bacteriol. 1995 Feb;177(3):667–675. doi: 10.1128/jb.177.3.667-675.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Harayama S., Kok M., Neidle E. L. Functional and evolutionary relationships among diverse oxygenases. Annu Rev Microbiol. 1992;46:565–601. doi: 10.1146/annurev.mi.46.100192.003025. [DOI] [PubMed] [Google Scholar]
- Harayama S., Rekik M., Bairoch A., Neidle E. L., Ornston L. N. Potential DNA slippage structures acquired during evolutionary divergence of Acinetobacter calcoaceticus chromosomal benABC and Pseudomonas putida TOL pWW0 plasmid xylXYZ, genes encoding benzoate dioxygenases. J Bacteriol. 1991 Dec;173(23):7540–7548. doi: 10.1128/jb.173.23.7540-7548.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hayase N., Taira K., Furukawa K. Pseudomonas putida KF715 bphABCD operon encoding biphenyl and polychlorinated biphenyl degradation: cloning, analysis, and expression in soil bacteria. J Bacteriol. 1990 Feb;172(2):1160–1164. doi: 10.1128/jb.172.2.1160-1164.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Iwata S., Saynovits M., Link T. A., Michel H. Structure of a water soluble fragment of the 'Rieske' iron-sulfur protein of the bovine heart mitochondrial cytochrome bc1 complex determined by MAD phasing at 1.5 A resolution. Structure. 1996 May 15;4(5):567–579. doi: 10.1016/s0969-2126(96)00062-7. [DOI] [PubMed] [Google Scholar]
- Jiang H., Parales R. E., Lynch N. A., Gibson D. T. Site-directed mutagenesis of conserved amino acids in the alpha subunit of toluene dioxygenase: potential mononuclear non-heme iron coordination sites. J Bacteriol. 1996 Jun;178(11):3133–3139. doi: 10.1128/jb.178.11.3133-3139.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Mandel M., Higa A. Calcium-dependent bacteriophage DNA infection. J Mol Biol. 1970 Oct 14;53(1):159–162. doi: 10.1016/0022-2836(70)90051-3. [DOI] [PubMed] [Google Scholar]
- Mason J. R., Cammack R. The electron-transport proteins of hydroxylating bacterial dioxygenases. Annu Rev Microbiol. 1992;46:277–305. doi: 10.1146/annurev.mi.46.100192.001425. [DOI] [PubMed] [Google Scholar]
- Nagy I., Schoofs G., Compernolle F., Proost P., Vanderleyden J., de Mot R. Degradation of the thiocarbamate herbicide EPTC (S-ethyl dipropylcarbamothioate) and biosafening by Rhodococcus sp. strain NI86/21 involve an inducible cytochrome P-450 system and aldehyde dehydrogenase. J Bacteriol. 1995 Feb;177(3):676–687. doi: 10.1128/jb.177.3.676-687.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nakatsu C. H., Straus N. A., Wyndham R. C. The nucleotide sequence of the Tn5271 3-chlorobenzoate 3,4-dioxygenase genes (cbaAB) unites the class IA oxygenases in a single lineage. Microbiology. 1995 Feb;141(Pt 2):485–495. doi: 10.1099/13500872-141-2-485. [DOI] [PubMed] [Google Scholar]
- Neidle E. L., Hartnett C., Ornston L. N., Bairoch A., Rekik M., Harayama S. Nucleotide sequences of the Acinetobacter calcoaceticus benABC genes for benzoate 1,2-dioxygenase reveal evolutionary relationships among multicomponent oxygenases. J Bacteriol. 1991 Sep;173(17):5385–5395. doi: 10.1128/jb.173.17.5385-5395.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nordlund I., Powlowski J., Shingler V. Complete nucleotide sequence and polypeptide analysis of multicomponent phenol hydroxylase from Pseudomonas sp. strain CF600. J Bacteriol. 1990 Dec;172(12):6826–6833. doi: 10.1128/jb.172.12.6826-6833.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nordlund I., Shingler V. Nucleotide sequences of the meta-cleavage pathway enzymes 2-hydroxymuconic semialdehyde dehydrogenase and 2-hydroxymuconic semialdehyde hydrolase from Pseudomonas CF600. Biochim Biophys Acta. 1990 Jun 21;1049(2):227–230. doi: 10.1016/0167-4781(90)90046-5. [DOI] [PubMed] [Google Scholar]
- Norrander J., Kempe T., Messing J. Construction of improved M13 vectors using oligodeoxynucleotide-directed mutagenesis. Gene. 1983 Dec;26(1):101–106. doi: 10.1016/0378-1119(83)90040-9. [DOI] [PubMed] [Google Scholar]
- Ramos J. L., Rojo F., Zhou L., Timmis K. N. A family of positive regulators related to the Pseudomonas putida TOL plasmid XylS and the Escherichia coli AraC activators. Nucleic Acids Res. 1990 Apr 25;18(8):2149–2152. doi: 10.1093/nar/18.8.2149. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Rosche B., Fetzner S., Lingens F., Nitschke W., Riedel A. The 2Fe2S centres of the 2-oxo-1,2-dihydroquinoline 8-monooxygenase from Pseudomonas putida 86 studied by EPR spectroscopy. Biochim Biophys Acta. 1995 Oct 25;1252(2):177–179. doi: 10.1016/0167-4838(95)00151-j. [DOI] [PubMed] [Google Scholar]
- Simon M. J., Osslund T. D., Saunders R., Ensley B. D., Suggs S., Harcourt A., Suen W. C., Cruden D. L., Gibson D. T., Zylstra G. J. Sequences of genes encoding naphthalene dioxygenase in Pseudomonas putida strains G7 and NCIB 9816-4. Gene. 1993 May 15;127(1):31–37. doi: 10.1016/0378-1119(93)90613-8. [DOI] [PubMed] [Google Scholar]
- Stainthorpe A. C., Lees V., Salmond G. P., Dalton H., Murrell J. C. The methane monooxygenase gene cluster of Methylococcus capsulatus (Bath). Gene. 1990 Jul 2;91(1):27–34. doi: 10.1016/0378-1119(90)90158-n. [DOI] [PubMed] [Google Scholar]
- Suen W. C., Haigler B. E., Spain J. C. 2,4-Dinitrotoluene dioxygenase from Burkholderia sp. strain DNT: similarity to naphthalene dioxygenase. J Bacteriol. 1996 Aug;178(16):4926–4934. doi: 10.1128/jb.178.16.4926-4934.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Suzuki M., Hayakawa T., Shaw J. P., Rekik M., Harayama S. Primary structure of xylene monooxygenase: similarities to and differences from the alkane hydroxylation system. J Bacteriol. 1991 Mar;173(5):1690–1695. doi: 10.1128/jb.173.5.1690-1695.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Taira K., Hirose J., Hayashida S., Furukawa K. Analysis of bph operon from the polychlorinated biphenyl-degrading strain of Pseudomonas pseudoalcaligenes KF707. J Biol Chem. 1992 Mar 5;267(7):4844–4853. [PubMed] [Google Scholar]
- Takizawa N., Kaida N., Torigoe S., Moritani T., Sawada T., Satoh S., Kiyohara H. Identification and characterization of genes encoding polycyclic aromatic hydrocarbon dioxygenase and polycyclic aromatic hydrocarbon dihydrodiol dehydrogenase in Pseudomonas putida OUS82. J Bacteriol. 1994 Apr;176(8):2444–2449. doi: 10.1128/jb.176.8.2444-2449.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tan H. M., Tang H. Y., Joannou C. L., Abdel-Wahab N. H., Mason J. R. The Pseudomonas putida ML2 plasmid-encoded genes for benzene dioxygenase are unusual in codon usage and low in G+C content. Gene. 1993 Aug 16;130(1):33–39. doi: 10.1016/0378-1119(93)90343-2. [DOI] [PubMed] [Google Scholar]
- Vieira J., Messing J. The pUC plasmids, an M13mp7-derived system for insertion mutagenesis and sequencing with synthetic universal primers. Gene. 1982 Oct;19(3):259–268. doi: 10.1016/0378-1119(82)90015-4. [DOI] [PubMed] [Google Scholar]
- Werlen C., Kohler H. P., van der Meer J. R. The broad substrate chlorobenzene dioxygenase and cis-chlorobenzene dihydrodiol dehydrogenase of Pseudomonas sp. strain P51 are linked evolutionarily to the enzymes for benzene and toluene degradation. J Biol Chem. 1996 Feb 23;271(8):4009–4016. doi: 10.1074/jbc.271.8.4009. [DOI] [PubMed] [Google Scholar]
- Zylstra G. J., Gibson D. T. Toluene degradation by Pseudomonas putida F1. Nucleotide sequence of the todC1C2BADE genes and their expression in Escherichia coli. J Biol Chem. 1989 Sep 5;264(25):14940–14946. [PubMed] [Google Scholar]