Part:BBa_K5043008
Pyrene degradation operon
Encodes an operon with in total nine protein coding sequences. These encode enzymes, forming a complete metabolic pathway which degrades pyrene to 3,4-dihydroxy-phenanthrene, a phenanthrene degradation intermediate. [1, 2] In this way this part shall enable bacteria, already able to degrade phenanthrene (like Pseudomonas vancouverensis DSM8368 [3, 4]), to degrade pyrene, too.
Usage and Biology
Genes were chosen based on Mycobacterium vanbaalenii Pyr-1’s pyrene degradation pathway and mainly derived from this bacteria. As shown in fig. 1 pyrene gets subsequently degraded to 3,4-dihydroxy-phenanthrene by the different enzymes/enzyme complexes in the operon. [2] The resulting 3,4-dihydroxy-phenanthrene shall be channelled into phenanthrene degradation pathway. [1]
Sequence and Features
- 10INCOMPATIBLE WITH RFC[10]Illegal EcoRI site found at 3199
Illegal EcoRI site found at 7727
Illegal PstI site found at 719
Illegal PstI site found at 4703
Illegal PstI site found at 5754 - 12INCOMPATIBLE WITH RFC[12]Illegal EcoRI site found at 3199
Illegal EcoRI site found at 7727
Illegal NheI site found at 7
Illegal NheI site found at 30
Illegal PstI site found at 719
Illegal PstI site found at 4703
Illegal PstI site found at 5754 - 21INCOMPATIBLE WITH RFC[21]Illegal EcoRI site found at 3199
Illegal EcoRI site found at 7727
Illegal BglII site found at 390
Illegal BglII site found at 4695
Illegal BamHI site found at 1259
Illegal BamHI site found at 3644
Illegal XhoI site found at 54
Illegal XhoI site found at 931
Illegal XhoI site found at 1880
Illegal XhoI site found at 2362
Illegal XhoI site found at 3909
Illegal XhoI site found at 8073 - 23INCOMPATIBLE WITH RFC[23]Illegal EcoRI site found at 3199
Illegal EcoRI site found at 7727
Illegal PstI site found at 719
Illegal PstI site found at 4703
Illegal PstI site found at 5754 - 25INCOMPATIBLE WITH RFC[25]Illegal EcoRI site found at 3199
Illegal EcoRI site found at 7727
Illegal PstI site found at 719
Illegal PstI site found at 4703
Illegal PstI site found at 5754
Illegal NgoMIV site found at 749
Illegal NgoMIV site found at 854
Illegal NgoMIV site found at 1957
Illegal NgoMIV site found at 2637
Illegal NgoMIV site found at 4039
Illegal NgoMIV site found at 4342
Illegal NgoMIV site found at 8108
Illegal AgeI site found at 1350
Illegal AgeI site found at 1408 - 1000COMPATIBLE WITH RFC[1000]
References
References [1] W. C. EVANS, H. N. FERNLEY, and E. GRIFFITHS, "OXIDATIVE METABOLISM OF PHENANTHRENE AND ANTHRACENE BY SOIL PSEUDOMONADS. THE RING-FISSION MECHANISM," The Biochemical journal, vol. 95, no. 3, pp. 819–831, 1965, doi: 10.1042/bj0950819. [2] S.-J. Kim, O. Kweon, R. C. Jones, J. P. Freeman, R. D. Edmondson, and C. E. Cerniglia, "Complete and integrated pyrene degradation pathway in Mycobacterium vanbaalenii PYR-1 based on systems biology," Journal of bacteriology, vol. 189, no. 2, pp. 464–472, 2007, doi: 10.1128/JB.01310-06. [3] W. W. Mohn, A. E. Wilson, P. Bicho, and E. R. Moore, "Physiological and phylogenetic diversity of bacteria growing on resin acids," Systematic and applied microbiology, vol. 22, no. 1, pp. 68–78, 1999, doi: 10.1016/S0723-2020(99)80029-0. [4] Y. Yang, R. F. Chen, and M. P. Shiaris, "Metabolism of naphthalene, fluorene, and phenanthrene: preliminary characterization of a cloned gene cluster from Pseudomonas putida NCIB 9816," Journal of bacteriology, vol. 176, no. 8, pp. 2158–2164, 1994, doi: 10.1128/jb.176.8.2158-2164.1994. [5] M. Vazquez-Vilar et al., "GB3.0: a platform for plant bio-design that connects functional DNA elements with associated biological data," Nucleic acids research, vol. 45, no. 4, pp. 2196–2209, 2017, doi: 10.1093/nar/gkw1326.
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