Table 3.
Overview of the ten predictors that were used to derive data for DescribePROT. The runtime was measured using five batches with 100 proteins each on the Intel i7 CPU; we report averages and standard deviations over the five runs
| Predictor | Last updated | Version | Reference(s) | Runtime avg±stdev [s] per 100 proteins | Notes | URL |
|---|---|---|---|---|---|---|
| ASAquick | 2017 | 1.0 | (49,50) | 25.49±0.58 | Fast and accurate predictor of solvent accessibility. | http://mamiris.com/services.html |
| DFLpred | 2016 | 1.0 | (51) | 30.23±0.55 | Sole, fast and accurate predictor of disordered linkers. | http://biomine.cs.vcu.edu/servers/DFLpred/ |
| DisoRDPbind | 2015 | 1.0 | (52–54) | 30.15±1.12 | Sole, fast and accurate predictor of the disordered DNA-, RNA- and protein-binding AAs. | http://biomine.cs.vcu.edu/servers/DisoRDPbind/ |
| DRNApred | 2017 | 1.0 | (55) | 1094.03±79.89 | Accurate predictor of DNA- and RNA-binding AAs annotated from structure. | http://biomine.cs.vcu.edu/servers/DRNApred/ |
| MMseqs2 | 2019 | 2.0 | (56,57) | 932.99±4.04 | Fast and sensitive multiple sequence alignment. | https://search.mmseqs.com/search |
| MoRFchiBi | 2016 | 1.03 | (58) | 179.87±8.73 | Fast and accurate predictor of MoRF regions. | https://gsponerlab.msl.ubc.ca/software/morf_chibi/ |
| PSIPRED | 2019 | 4.01 | (36,59) | 90.91±3.44 | Popular and accurate predictor of secondary structure. | http://bioinf.cs.ucl.ac.uk/psipred/ |
| SCRIBER | 2019 | 1.0 | (60) | 770.56±40.81 | Accurate predictor of protein-binding AAs annotated from structure. | http://biomine.cs.vcu.edu/servers/SCRIBER/ |
| SignalP | 2019 | 5.0 | (34,61) | 492.80±0.12 | Popular, accurate and comprehensive predictor of signal peptides. | http://www.cbs.dtu.dk/services/SignalP/ |
| VSL2B | 2006 | N/A | (62,63) | 7.76±0.044 | Fast and accurate predictor of intrinsically disordered AAs. | http://www.dabi.temple.edu/disprot/predictor.php |