Geomfinder 2.0 (VM-UTALCA Server): An enhance and parallel algorithm for deep exploration and discovery of similar and druggable 3D patterns.
Geomfinder* is an intuitive, flexible and ligand-independent web server for detailed estimation of similarities between all pairs of 3D patterns detected in any two given protein structures. Geomfinder 2.0 (VM-UTALCA Server) is an enhanced version of our previous algorithm. Important improvements have been incorporated:
- Allows to compare quaternary structures.
- Allows to compare a list of pairs of structures.
- Allows to know how druggable is the zone where similar 3D patterns were found.
- The execution time has been significantly reduced allowing the exploration of larger number of quaternary structures in a reasonable amount of time.
If you have any question about Geomfinder, please send us an email
to Gabriel Núñez-Vivanco (gabriel.nunez@uaysen.cl) or Alejandro Valdés-Jiménez (avaldes@ubiobio.cl)
[*] Núñez-Vivanco, G., Valdés-Jiménez, A., Besoaín, F. et al. Geomfinder: a multi-feature identifier of similar three-dimensional protein patterns: a ligand-independent approach. J Cheminform. 2016. https://doi.org/10.1186/s13321-016-0131-9
[*] A. Valdes-Jiménez, M. Reyes-Parada, G. Núñez-Vivanco and D. Jiménez-González. Parallel algorithm for discovering and comparing three-dimensional proteins patterns. In IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2024. https://doi.org/10.1109/TCBB.2024.3367789
[*] Alejandro Valdés-Jiménez, Gabriel Nuñez-Vivanco, Daniel Jiménez-González. Improving the Discovering and Comparing of Three-Dimensional Protein Patterns. 44th IEEE International Conference of the Chilean Computer Science Society. 2025. https://doi.org/10.1109/SCCC67219.2025