Reaction center protein M chain (pufM) is a 308-residue protein from Cereibacter sphaeroides (strain ATCC 17023 / DSM 158 / JCM 6121 / CCUG 31486 / LMG 2827 / NBRC 12203 / NCIMB 8253 / ATH 2.4.1.). This is its AlphaFold structure prediction, created 1 Aug 2025. UniProt accession: Q3J1A6.
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The mean pLDDT of this model is 98.0 (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 | 98% |
| 70 to 90 | Confident: backbone generally right | 1% |
| 50 to 70 | Low: treat with caution | 1% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
The reaction center is a membrane-bound complex that mediates the initial photochemical event in the electron transfer process of photosynthesis
Reaction center is composed of four bacteriochlorophylls, two bacteriopheophytins, two ubiquinones, one iron, and three highly hydrophobic polypeptide chains (designated L, M, and H)
Cellular chromatophore membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7P2C | X-ray | 2.04 Å | M=2-304 |
| 4IN5 | X-ray | 2.2 Å | M=1-307 |
| 5LRI | X-ray | 2.4 Å | M=2-308 |
| 7PIL | EM | 2.5 Å | M=2-308 |
| 2WX5 | X-ray | 2.63 Å | M=2-308 |
| 4IN6 | X-ray | 2.7 Å | M=2-303 |
| 7VOR | EM | 2.74 Å | M/m=1-308 |
| 7VNY | EM | 2.79 Å | M=1-308 |
| 4N7L | X-ray | 2.85 Å | M=2-304 |
| 7VNM | EM | 2.86 Å | M=1-308 |
| 7PQD | EM | 2.9 Å | M/m=2-308 |
| 7VOT | EM | 2.9 Å | M/m=1-308 |
| 7F0L | EM | 2.94 Å | M=1-308 |
| 7VA9 | EM | 3.08 Å | M/m=1-308 |
| 7VB9 | EM | 3.45 Å | M/m=1-308 |
| 7VOY | EM | 4.2 Å | M=1-308 |
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