Genome Property Definition Page
| Accession | GenProp0029 | |
| Name | nitrogen fixation | |
| Type | METAPATH | |
| Description | Nitrogen fixation is the conversion of atmospheric nitrogen, N2 (with its difficult-to-cleave triple bond) into usable forms such as NH3. Conditions should be anaerobic or microaerophilic. The characteristic enzyme is nitrogenase, but many other proteins are involved. Nitrogenase has an iron protein and MoFe, VFe, or FeFe alpha/beta heterotetramer. Expected along with nitrogenase are several accessory proteins, the transcriptional regulator NifA, a ferredoxin or flavodoxin, downstream genes for nitrogen assimilation (NtrC, GlnA), genes for protection from oxygen (e.g. leghemoglobin in root nodule bacteria), etc. | |
| JCVI Role | Nitrogen fixation | |
| Parent Property | GenProp0202: nitrogen metabolism GenProp0603: lifestyle | |
| Literature References |
| |
| Web References | KEGG: Nitrogen Metabolism | |
| Gene Ontology Term | GO:0006808: regulation of nitrogen utilization (biological_process) GO:0009108: coenzyme biosynthetic process (biological_process) GO:0009399: nitrogen fixation (biological_process) GO:0016612: molybdenum-iron nitrogenase complex (cellular_component) |
Components
| Step Name | Step Num | Required | Evidence (Method) | Evidence Go Terms |
|---|---|---|---|---|
| nifX neighbor TIGR02935/DUF269 | DUF269 | NO | TIGR02935 (HMM): probable nitrogen fixation protein | GO:0009399: nitrogen fixation |
| nitrogenase component I (dinitrogenase) | comp_I | YES | GenProp0633 (GENPROP): nitrogenase, Mo-containing GenProp0631 (GENPROP): nitrogenase, Fe-only GenProp0632 (GENPROP): nitrogenase, V-containing | GO:0009399: nitrogen fixation GO:0009399: nitrogen fixation GO:0009399: nitrogen fixation |
| nitrogenase component II (dinitrogenase reductase) | comp_II | YES | TIGR01287 (HMM): nitrogenase iron protein | GO:0009399: nitrogen fixation |
| ADP-ribosyl-[dinitrogen reductase] hydrolase | draG | NO | TIGR02662 (HMM): ADP-ribosyl-[dinitrogen reductase] hydrolase | GO:0009399: nitrogen fixation |
| NAD(+)--dinitrogen-reductase ADP-D-ribosyltransferase | draT | NO | PF07357 (HMM): NAD(+)--dinitrogen-reductase ADP-D-ribosyltransferase | GO:0009399: nitrogen fixation |
| transcriptional regulator | nifA | NO | TIGR01817 (HMM): Nif-specific regulatory protein | GO:0006808: regulation of nitrogen utilization |
| nitrogenase iron-molybdenum cofactor biosynthesis protein | nifB | YES | TIGR01290 (HMM): nitrogenase cofactor biosynthesis protein NifB | GO:0009108: coenzyme biosynthetic process |
| nitrogenase iron-molybdenum cofactor biosynthesis protein | nifE | YES | TIGR01283 (HMM): nitrogenase MoFe cofactor biosynthesis protein NifE | GO:0009108: coenzyme biosynthetic process |
| nitrogen fixation positive activator protein | nifL | NO | ||
| nitrogen fixation protein NifM | nifM | NO | TIGR02933 (HMM): nitrogen fixation protein NifM | GO:0009399: nitrogen fixation |
| nitrogenase molybdenum-iron protein, NifN subunit | nifN | YES | TIGR01285 (HMM): nitrogenase molybdenum-iron cofactor biosynthesis protein NifN | GO:0016612: molybdenum-iron nitrogenase complex |
| nitrogen fixation protein NifQ | nifQ | NO | PF04891 (HMM): NifQ | |
| probable nitrogen fixation protein NifT | nifT | NO | TIGR02934 (HMM): probable nitrogen fixation protein FixT | GO:0009399: nitrogen fixation |
| homocitrate synthase | nifV | NO | TIGR02660 (HMM): homocitrate synthase | GO:0009399: nitrogen fixation |
| nitrogen fixation protein | nifW | NO | PF03206 (HMM): nitrogen fixation protein NifW | |
| nitrogenase molybdenum-iron cofactor biosynthesis protein | nifX | NO | TIGR02663 (HMM): nitrogen fixation protein NifX | GO:0009399: nitrogen fixation |
| iron-sulfur cofactor synthesis protein | nifZ | NO | PF04319 (HMM): NifZ domain | |
| nif-specific ferredoxin | nif_fdx | NO | TIGR02936 (HMM): ferredoxin III, nif-specific | GO:0009399: nitrogen fixation |
Parent Properties
| Accession | Name |
|---|---|
| GenProp0202 | nitrogen metabolism |
| GenProp0603 | lifestyle |
Child Properties
| Accession | Name |
|---|---|
| GenProp0631 | nitrogenase, Fe-only |
| GenProp0632 | nitrogenase, V-containing |
| GenProp0633 | nitrogenase, Mo-containing |
Sibling Properties
| Accession | Name |
|---|---|
| GenProp0200 | periplasmic nitrate reductase |
| GenProp0666 | membrane-associated monooxygenase (methane/ammonia) |
| GenProp0682 | formate-dependent nitrite reductase, seven-gene type |
| GenProp0683 | cytochrome c nitrite reductase NrfHA |
| GenProp0814 | urea utilization |
| GenProp0899 | nitrile hydratase |
| GenProp0011 | methanogenesis |
| GenProp0013 | oxygen requirement |
| GenProp0031 | methane utilization |
| GenProp0044 | temperature environment |
| GenProp0153 | biofilm participation |
| GenProp0549 | pathogen |
| GenProp0554 | mutualist |
| GenProp0558 | obligate intracellular growth |
| GenProp0559 | facultative intracellular growth |
| GenProp0602 | extremophile |
| GenProp0608 | chemoautotroph |
| GenProp0609 | phototroph |