TABLE 3.
Homolog analysis of nitrogen fixing gene cluster in R. aceris ZF458 and other Rahnella strains.
| Strain |
Rahnella aceris ZF458 |
R. aquatilis ZF7 |
R. aquatilis HX2 |
Rahnella sp. Y9602 |
R. aquatilis ATCC 33071 |
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| Genes | Product definition | Locus Tag | Protein ID | Protein ID | Homology (%) | Protein ID | Homology (%) | Protein ID | Homology (%) | Protein ID | Homology (%) |
| Mo nitrogenase structural genes | |||||||||||
| nifH | Nitrogenase iron protein NifH | JHW33_RS22855 | WP_014333921.1 | NA | NA | WP_014333921.1 | 100 | NA | NA | WP_014333921.1 | 100 |
| nifD | Nitrogenase molybdenum-iron protein alpha chain | JHW33_RS22850 | WP_200227561.1 | NA | NA | WP_014683022.1 | 99 | NA | NA | WP_014333920.1 | 99 |
| nifK | nitrogenase molybdenum-iron protein subunit beta | JHW33_RS22845 | WP_014683023.1 | NA | NA | WP_014683023.1 | 100 | NA | NA | WP_014333919.1 | 99 |
| FeMo-co Synthesis | |||||||||||
| nifY | Nitrogen fixation protein NifY | JHW33_RS22835 | WP_014683024.1 | NA | NA | WP_014683024.1 | 100 | NA | NA | WP_014333917.1 | 97 |
| nifE | Nitrogenase molybdenum-cofactor synthesis protein NifE | JHW33_RS22830 | WP_014683025.1 | NA | NA | WP_014683025.1 | 100 | NA | NA | WP_014333916.1 | 99 |
| nifN | Nitrogenase molybdenum-cofactor biosynthesis protein NifN | JHW33_RS22825 | WP_014683026.1 | NA | NA | WP_014683026.1 | 100 | NA | NA | WP_014333915.1 | 99 |
| nifX | nitrogen fixation protein NifX | JHW33_RS22820 | WP_014683027.1 | NA | NA | WP_014683027.1 | 100 | NA | NA | WP_014333914.1 | 98 |
| nifU | Fe-S cluster assembly protein NifU | JHW33_RS22810 | WP_014683029.1 | NA | NA | WP_014683029.1 | 100 | NA | NA | WP_014333912.1 | 97 |
| nifS | Cysteine desulfurase | JHW33_RS22805 | WP_200227559.1 | NA | NA | WP_014683030.1 | 99 | NA | NA | WP_014333911.1 | 99 |
| nifV | Homocitrate synthase NifV | JHW33_RS22800 | WP_014683031.1 | NA | NA | WP_014683031.1 | 100 | NA | NA | WP_014333910.1 | 98 |
| nifQ | Nitrogen fixation protein NifQ | JHW33_RS22765 | WP_014683038.1 | NA | NA | WP_014683038.1 | 100 | NA | NA | WP_014333903.1 | 98 |
| nifB | FeMo cofactor biosynthesis protein NifB | JHW33_RS22770 | WP_200227556.1 | NA | NA | WP_014683037.1 | 99 | NA | NA | WP_014333904.1 | 98 |
| Maturation of Nitrogenase | |||||||||||
| nifM | Nitrogen fixation protein NifM | JHW33_RS22785 | WP_014683034.1 | NA | NA | WP_014683034.1 | 100 | NA | NA | WP_014333907.1 | 97 |
| nifZ | Nitrogen fixation protein NifZ | JHW33_RS22790 | WP_014683033.1 | NA | NA | WP_014683033.1 | 100 | NA | NA | WP_014333908.1 | 97 |
| Electron Transport | |||||||||||
| nifF | Flavodoxin I | JHW33_RS22760 | WP_014683039.1 | NA | NA | WP_014683039.1 | 100 | NA | NA | WP_014333902.1 | 96 |
| nifJ | Pyruvate ferredoxin/flavodoxin oxidoreductase | JHW33_RS06430 | WP_200225589.1 | WP_119261595.1 | 99 | WP_013575392.1 | 99 | WP_013575392.1 | 99 | WP_015697263.1 | 98 |
| Regulation of nif Gene Expression | |||||||||||
| nifL | Nitrogen fixation regulatory protein NifL | JHW33_RS22780 | WP_200227570.1 | NA | NA | WP_014683035.1 | 99 | NA | NA | WP_014333906.1 | 98 |
| nifA | nif-specific transcriptional activator NifA | JHW33_RS22775 | WP_014683036.1 | NA | NA | WP_014683036.1 | 100 | NA | NA | WP_014333905.1 | 99 |
| Unknown Function | |||||||||||
| nifT | Nitrogen fixation protein NifT | JHW33_RS22840 | WP_014333918.1 | NA | NA | WP_014333918.1 | 100 | NA | NA | WP_014333918.1 | 100 |
| nifW | Nif-specific regulatory protein NifW | JHW33_RS22795 | WP_014683032.1 | NA | NA | WP_014683032.1 | 100 | NA | NA | WP_014333909.1 | 97 |
| nifI | Hypothetical protein | JHW33_RS22815 | WP_014683028.1 | NA | NA | WP_014683028.1 | 100 | NA | NA | WP_014333913.1 | 97 |
| Nitrogen Regulation Related Genes | |||||||||||
| glnQ | Glutamine ABC transporter ATP-binding protein | JHW33_RS01275 | WP_013574681.1 | WP_013574681.1 | 100 | WP_013574681.1 | 100 | WP_013574681.1 | 100 | WP_015696540.1 | 99 |
| ntrB | Nitrogen regulation protein NR(II) | JHW33_RS04965 | WP_156106968.1 | WP_112152400.1 | 99 | WP_013577653.1 | 99 | WP_013575697.1 | 99 | WP_015697258.1 | 96 |
| nac | Nitrogen assimilation transcriptional regulator | JHW33_RS02570 | WP_013574993.1 | WP_119261788.1 | 100 | WP_015689657.1 | 99 | WP_013574993.1 | 99 | WP_037038858.1 | 95 |
| glnB | nitrogen regulatory protein P-II | JHW33_RS21825 | WP_013574351.1 | WP_013574351.1 | 100 | WP_013573506.1 | 100 | WP_013574351.1 | 100 | WP_013574351.1 | 99 |
| glnD | PII uridylyl-transferase | JHW33_RS20990 | WP_013574191.1 | WP_013574191.1 | 100 | WP_013574191.1 | 100 | WP_013574191.1 | 100 | WP_015696089.1 | 99 |
| glnA | Glutamine synthetase | JHW33_RS16330 | WP_013577652.1 | WP_013577652.1 | 100 | WP_015690611.1 | 100 | WP_013577652.1 | 99 | WP_013577652.1 | 98 |
| glnG | Nitrogen regulation protein NR(I) | JHW33_RS16340 | WP_013577654.1 | WP_013577654.1 | 100 | WP_013577654.1 | 100 | WP_013577654.1 | 100 | WP_015699252.1 | 99 |
ND, not determined; NA, not available.