Nitrogenase iron protein 1 (nifH1) is a 290-residue protein from Azotobacter vinelandii. This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: P00459.
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The mean pLDDT of this model is 91.6 (very high overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 72% |
| 70 to 90 | Confident: backbone generally right | 23% |
| 50 to 70 | Low: treat with caution | 4% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
The key enzymatic reactions in nitrogen fixation are catalyzed by the nitrogenase complex, which has 2 components: the iron protein (component 2) and a component 1 which is either a molybdenum-iron protein, a vanadium-iron, or an iron-iron protein
Homodimer
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 6N4L | X-ray | 1.13 Å | A=2-290 |
| 7TPW | X-ray | 1.18 Å | A=1-290 |
| 7TPO | X-ray | 1.35 Å | A=1-290 |
| 7TPX | X-ray | 1.35 Å | A=1-290 |
| 7TPN | X-ray | 1.38 Å | A=1-290 |
| 7TNE | X-ray | 1.39 Å | A=1-290 |
| 7TQF | X-ray | 1.45 Å | A=1-290 |
| 7TQI | X-ray | 1.47 Å | A=1-290 |
| 7TPY | X-ray | 1.48 Å | A=1-290 |
| 7TQJ | X-ray | 1.48 Å | A=1-290 |
| 7TQK | X-ray | 1.48 Å | A=1-290 |
| 7TPV | X-ray | 1.49 Å | A=1-290 |
| 7TQH | X-ray | 1.49 Å | A=1-290 |
| 7T4H | X-ray | 1.51 Å | A=1-290 |
| 7TQC | X-ray | 1.53 Å | A=1-290 |
| 6N4M | X-ray | 1.58 Å | A=2-290 |
| 7TQE | X-ray | 1.59 Å | A=1-290 |
| 7TQ9 | X-ray | 1.6 Å | A=1-290 |
| 7TPZ | X-ray | 1.71 Å | A=1-290 |
| 6N4K | X-ray | 1.76 Å | A/B=2-290 |
Showing 20 of 54 experimental structures (best resolution first).
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