Table 2.
Prediction of HP16118P spatial structural features using different models and algorithms
| Assessment methodology | Level 1 indicators | Level 2 indicators | Rebetta | Swiss model | AlphaFold2 | I-TASSER | GalaxyWEB | |
|---|---|---|---|---|---|---|---|---|
| Model 1 | ERRAT | Errat Failed. No results. | 80.2469 | 39.1691 | 77.0202 | 71.8362 | ||
| VERIFY 3D | At least 80% of the amino acids have scored >= 0.1 in the 3D/1D profile. | Fail | Fail | Fail | Fail | Fail | ||
| PROCHECK | Ramachandran plot | core | 100.00% | 84.40% | 41.20% | 68.70% | 80.60% | |
| allow | 0.00% | 13.00% | 18.70% | 24.80% | 14.20% | |||
| gener | 0.00% | 2.60% | 13.30% | 4.20% | 2.10% | |||
| disall | 0.00% | 0.00% | 26.90% | 2.40% | 3.10% | |||
| residues | 7 | 89 | 844 | 844 | 844 | |||
| evaluations | Error | 0 | 5 | 7 | 7 | 4 | ||
| Warning | 0 | 1 | 1 | 2 | 3 | |||
| Pass | 8 | 2 | 1 | 0 | 1 | |||
| WHATCHECK | Whole | 41 | 47 | 47 | 48 | 46 | ||
| Error | 4 | 8 | 8 | 10 | 5 | |||
| Warning | 4 | 15 | 17 | 19 | 16 | |||
| Pass | 33 | 24 | 22 | 19 | 25 | |||
| Model 2 | ERRAT | Errat Failed. No results. | 68.8889 | 51.567 | 79.0382 | 75.5611 | ||
| VERIFY 3D | At least 80% of the amino acids have scored >= 0.1 in the 3D/1D profile. | Fail | Fail | Fail | Fail | Fail | ||
| PROCHECK | Ramachandran plot | core | 100.00% | 87.30% | 55.20% | 65.10% | 81.80% | |
| allow | 0.00% | 12.70% | 19.90% | 28.20% | 13.40% | |||
| gener | 0.00% | 0.00% | 10.70% | 5.10% | 1.60% | |||
| disall | 0.00% | 0.00% | 14.20% | 1.60% | 3.10% | |||
| residues | 7 | 64 | 844 | 844 | 844 | |||
| evaluations | Error | 0 | 3 | 7 | 7 | 4 | ||
| Warning | 0 | 2 | 1 | 2 | 3 | |||
| Pass | 8 | 3 | 1 | 0 | 1 | |||
| WHATCHECK | Whole | 41 | 47 | 47 | 49 | 46 | ||
| Error | 4 | 6 | 8 | 11 | 4 | |||
| Warning | 4 | 12 | 17 | 18 | 15 | |||
| Pass | 33 | 29 | 22 | 20 | 27 | |||
| Model 3 | ERRAT | too small | 68.5714 | 59.5982 | 68.2741 | 75.5556 | ||
| VERIFY 3D | At least 80% of the amino acids have scored >= 0.1 in the 3D/1D profile. | too small | Fail | Fail | Fail | Fail | ||
| PROCHECK | Ramachandran plot | core | too small | 91.00% | 56.60% | 49.10% | 81.20% | |
| allow | too small | 6.40% | 25.20% | 36.40% | 13.60% | |||
| gener | too small | 1.30% | 13.10% | 7.50% | 2.50% | |||
| disall | too small | 1.30% | 5.10% | 7.00% | 2.70% | |||
| residues | too small | 91 | 844 | 844 | 844 | |||
| evaluations | Error | too small | 4 | 6 | 6 | 4 | ||
| Warning | too small | 1 | 2 | 3 | 3 | |||
| Pass | too small | 3 | 1 | 0 | 1 | |||
| WHATCHECK | Whole | too small | 47 | 47 | 48 | 46 | ||
| Error | too small | 6 | 8 | 11 | 4 | |||
| Warning | too small | 14 | 16 | 19 | 15 | |||
| Pass | too small | 27 | 23 | 18 | 27 | |||
| Model 4 | ERRAT | too small | 53.8462 | 59.3596 | 65.7895 | 73.8538 | ||
| VERIFY 3D | At least 80% of the amino acids have scored >= 0.1 in the 3D/1D profile. | too small | Fail | Fail | Pass | Pass | ||
| PROCHECK | Ramachandran plot | core | too small | 71.40% | 56.30% | 46.40% | 81.50% | |
| allow | too small | 21.40% | 26.60% | 38.50% | 13.40% | |||
| gener | too small | 7.10% | 12.20% | 9.70% | 2.20% | |||
| disall | too small | 0.00% | 4.90% | 5.40% | 2.80% | |||
| residues | too small | 35 | 844 | 844 | 844 | |||
| evaluations | Error | too small | 4 | 6 | 7 | 4 | ||
| Warning | too small | 2 | 1 | 2 | 3 | |||
| Pass | too small | 2 | 1 | 0 | 1 | |||
| WHATCHECK | Whole | too small | 44 | 47 | 49 | 46 | ||
| Error | too small | 7 | 8 | 11 | 4 | |||
| Warning | too small | 7 | 15 | 19 | 15 | |||
| Pass | too small | 30 | 24 | 19 | 27 | |||
| Model 5 | ERRAT | too small | 89.3617 | 75.3463 | 79.1209 | 72.5248 | ||
| VERIFY 3D | At least 80% of the amino acids have scored >= 0.1 in the 3D/1D profile. | too small | Fail | Fail | Pass | Fail | ||
| PROCHECK | Ramachandran plot | core | too small | 84.40% | 57.50% | 65.10% | 81.20% | |
| allow | too small | 15.60% | 26.40% | 27.60% | 13.60% | |||
| gener | too small | 0.00% | 12.10% | 4.50% | 2.10% | |||
| disall | too small | 0.00% | 4.00% | 2.80% | 3.10% | |||
| residues | too small | 55 | 844 | 844 | 844 | |||
| evaluations | Error | too small | 3 | 6 | 7 | 4 | ||
| Warning | too small | 3 | 1 | 2 | 3 | |||
| Pass | too small | 2 | 1 | 0 | 1 | |||
| WHATCHECK | Whole | too small | 46 | 47 | 48 | 46 | ||
| Error | too small | 7 | 8 | 10 | 5 | |||
| Warning | too small | 14 | 15 | 20 | 15 | |||
| Pass | too small | 25 | 24 | 18 | 26 |