Additional source data & code used to generate and analyze content of DIONYSUS database : www.dsimb.inserm.fr/DIONYSUS/.
When using please cite the following publication:
Gheeraert A, Bailly T, Ren Y, Hamraoui A, Te J, Vander Meersche Y, Cretin G, Leon Foun Lin R, Gelly J-C, Pérez S, Guyon Frédéric & Galochkina T. DIONYSUS: a database of protein-carbohydrate interfaces. Nucleic Acids Res 2024, DOI: 10.1093/nar/gkae890
Data:
- Sequence clusters in terms of MMseqs2 score:
data/binding_sites_mmseqs2_clusters.csv - Table downloadable from Clusters page:
data/binding_sites_mmseqs2_clusters.csv - List of core carbohydrates:
data/core_carbohydrates.json - List of all the carbohydrates:
data/carbohydrate_components.csv - Pairwise scores of high-quality interfaces in terms of geometrical resemblance (source code for the comparison script was already available at www.github.com/DSIMB/CompareCBS):
data/ava.score
Code:
- Script for selection of protein residues involved in binding site formation:
PDBParser.py - Source code for clustering algorithm used in our study
hierarchical_spectral_clustering.py