Workflow Type: Jupyter
Stable

Protein-ligand Docking tutorials using BioExcel Building Blocks (biobb)

This tutorials aim to illustrate the process of protein-ligand docking, step by step, using the BioExcel Building Blocks library (biobb). The particular examples used are based on the Mitogen-activated protein kinase 14 (p38-α) protein (PDB code 3HEC), a well-known Protein Kinase enzyme, in complex with the FDA-approved Imatinib (PDB Ligand code STI, DrugBank Ligand Code DB00619) and Dasatinib (PDB Ligand code 1N1, DrugBank Ligand Code DB01254), small kinase inhibitors molecules used to treat certain types of cancer.

The tutorials will guide you through the process of identifying the active site cavity (pocket) without previous knowledge, and the final prediction of the protein-ligand complex.


Copyright & Licensing

This software has been developed in the MMB group at the BSC & IRB for the European BioExcel, funded by the European Commission (EU H2020 823830, EU H2020 675728).

Licensed under the Apache License 2.0, see the file LICENSE for details.

Version History

Version 2 (latest) Created 15th Sep 2022 at 12:21 by Genís Bayarri

Update to BioBB 3.8.*. taken from Git commit 9b31005


Frozen Version-2 967bb61

Version 1 (earliest) Created 29th Jun 2021 at 10:24 by Genís Bayarri

Initial commit. Taken from Git commit 1dbc7fe


Frozen Version-1 1eb4448
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Citation
Lowe, D., Hospital, A., & Bayarri, G. (2022). Jupyter Notebook Protein-ligand Docking tutorial (Fpocket). WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.129.2
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Views: 1078

Created: 29th Jun 2021 at 10:24

Last updated: 17th Mar 2022 at 10:12

Last used: 6th Oct 2022 at 14:51

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