Table 1.
Availability of web-based tools for structure-based ligand binding site prediction introduced since 2009
| Name | Year | Type | Stand-alone | Online Visualization | Offline visualization | Source code |
|---|---|---|---|---|---|---|
| SiteHound (3) | 2009 | Energetic | Yes | Jmol | PyMOLb, Chimerab | Yes |
| ConCavity (4) | 2009 | Conservation | Yes | Jmol | PyMOL | Yes |
| Fpocket (2) | 2010 | Geometric | Yes | Jmol, OpenAstex | PyMOL, VMD | Yes |
| 3DLigandSite (11) | 2010 | Template | — | JSmol | PyMOL | — |
| POCASA (5) | 2010 | Geometric | — | Jmol | — | — |
| DoGSite (22) | 2010 | Geometric | — | NGL | — | — |
| MetaPocket 2.0 (6) | 2011 | Consensus | — | Jmol | PyMOL | — |
| FTSite (7) | 2012 | Energetic | — | Jmol, static | PyMOL | — |
| COFACTOR(12,13) | 2012, 2017 | Template | Yes | JSmol | — | — |
| COACH (14) | 2013 | Template | Yes | JSmol | — | — |
| eFindSite (27)a | 2014 | Template | Yes | — | PyMOL, VMD, Chimera | Yes |
| GalaxySite (24) | 2014 | Template/docking | — | PV, static | — | — |
| bSiteFinder (8) | 2016 | Template | — | Jmol | — | — |
| ISMBLab-LIG (15) | 2016 | Machine learning | — | JSmol & sequence | — | — |
| LIBRA-WA (16) | 2017 | Template | Yes | JSmol | — | — |
| DeepSite (23) | 2017 | Machine learning | — | NGL | — | — |
| PrankWeb (P2Rank) | this work | Machine learning | Yes | LiteMol & Proteal | PyMOL | Yes |
aIn the process of setting up a new interface.
bOnly data files provided.