Protein-protein interactions from evolutionary information
Protein interactions are key for understanding the functions of genes and proteins.
Multiple sequence alignments are rich sources of evolutionary information: conserved positions in structural cores and active sites; family-dependent conservation (tree determinants); coevolution (correlated mutations).
Sequence-based methods for prediction of interacting regions
- Tree-Determinant Residues and interacting surfaces,
- Correlated mutations: can point to the residues and regions implicated in the interaction between the two proteins,
Computational methods based on genomic information:
- Phlyogenetic Profiles,
- Conservation of Gene Neighboring,
- Gene Fusion: related to presence of fused genes in various genomes,
- Correlated Mutations (i2h),
- Similarity of Phylogenetic Trees (mirrortree).