FlexAID
FlexAID is a molecular docking software that can use small molecules and peptides as ligands and proteins and nucleic acids as docking targets. As the name suggests, FlexAID supports full ligand flexibility as well side-chain flexibility of the target. It does using a soft scoring function based on the complementarity of the two surfaces (ligand and target).
| Original author(s) | Francis Gaudreault, Louis-Philippe Morency, Rafael J. Najmanovich |
|---|---|
| Repository | github |
| Written in | C, C++ |
| Operating system | Linux |
| Type | Protein–ligand docking |
| License | Apache License |
| Website | biophys |
FlexAID has been shown to outperform existing widely used software such as AutoDock Vina and FlexX in the prediction of binding poses. This is particularly true in cases where target flexibility is crucial, such as is likely to be the case when using homology models.[1][2] The source code is available on GitHub under Apache License.[3]
Graphical user interface
A PyMOL plugin for FlexAID, NRGsuite, has also been developed by the original authors.[4]
References
- biophys.umontreal.ca http://biophys.umontreal.ca/nrg/resources.html. Retrieved 2019-05-22. Missing or empty
|title=(help) - Gaudreault, Francis; Najmanovich, Rafael J. (2015-07-27). "FlexAID: Revisiting Docking on Non-Native-Complex Structures". Journal of Chemical Information and Modeling. 55 (7): 1323–1336. doi:10.1021/acs.jcim.5b00078. ISSN 1549-9596. PMID 26076070.
- GitHub - NRGlab/FlexAID: Flexible Artificial Intelligence Docking., NRGlab, 2018-02-28, retrieved 2019-05-22
- Gaudreault, Francis; Morency, Louis-Philippe; Najmanovich, Rafael J. (2015-12-01). "NRGsuite: a PyMOL plugin to perform docking simulations in real time using FlexAID". Bioinformatics. 31 (23): 3856–3858. doi:10.1093/bioinformatics/btv458. ISSN 1367-4803. PMC 4653388. PMID 26249810.