Light-harvesting protein B-875 beta chain (pufB) is a 49-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: Q3J1A3.
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The mean pLDDT of this model is 80.5 (confident 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 | 39% |
| 70 to 90 | Confident: backbone generally right | 35% |
| 50 to 70 | Low: treat with caution | 22% |
| Below 50 | Very low: often disordered regions | 4% |
What pLDDT means and how to read it
Antenna complexes are light-harvesting systems, which transfer the excitation energy to the reaction centers
The core complex is formed by different alpha and beta chains, binding bacteriochlorophyll molecules, and arranged most probably in tetrameric structures disposed around the reaction center. The non-pigmented gamma chains may constitute additional components
Cell inner membrane
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7PIL | EM | 2.5 Å | BA/BB/BC/BD/BE/BF/BG/BH/BI/BJ/BK/BL/BM/BN=7-49 |
| 7VOR | EM | 2.74 Å | 0/2/4/8/B/C/E/G/J/N/P/R/T/V/Z/b/b0/b8/c/e/g/j/n/p/r/t/v/z=1-49 |
| 7VNY | EM | 2.79 Å | 0/2/8/B/C/E/G/J/N/P/R/T/V/Z=1-49 |
| 7VNM | EM | 2.86 Å | 0/2/8/B/C/E/G/J/N/P/R/T/V=1-49 |
| 7VOT | EM | 2.9 Å | 0/2/4/8/B/C/E/G/J/N/P/R/T/V/Z/b/b0/b8/c/e/g/j/n/p/r/t/v/z=1-49 |
| 7F0L | EM | 2.94 Å | 2/4/6/8/B/E/G/J/N/P/R/T/W/Z=1-49 |
| 7VA9 | EM | 3.08 Å | 0/2/4/8/B/E/G/J/N/P/R/T/V/X/Z/aa/ab/b/e/g/j/n/p/r/t/v/x/z=1-49 |
| 7VB9 | EM | 3.45 Å | 0/4/8/B/E/G/J/N/aa/ab/b/e/g/j/n/p/r/t/v/x/z=1-49 |
| 7VOY | EM | 4.2 Å | 0/2/3/5/8/B/E/G/J/N/P/R/T/V/X/Z/t=1-49 |
| 4V9G | X-ray | 7.78 Å | A4/A6/A8/A9/AE/AG/AI/AK/AO/AQ/AS/AU/AW/AY/B4/B6/B8/B9/BE/BG/BI/BK/BO/BQ/BS/BU/BW/BY=1-49 |
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