KSMoFinder-knowledge graph embedding of proteins and motifs for predicting kinases of human phosphosites.

ABSTRACT:

Motivation

Protein kinases regulate cellular signaling pathways through a cascade of phosphorylation activity, selectively targeting specific residues on substrate proteins (phosphosites). Determining the characteristics of kinases that phosphorylate specific substrates have been extensively studied. Most tools utilize amino acid sequence motifs around phosphosites but don't consider substrate protein's biological characteristics.

Results

We present KSMoFinder, a kinase-substrate-motif prediction model that learns factors beyond motif similarities by integrating proteins' biological contexts. We learn the semantics in a knowledge graph containing proteins' contextual relationships, kinase-specific motifs and motif composition, and represent the proteins and motifs as vectors

SUBMITTER: Anandakrishnan M 

PROVIDER: S-EPMC12664573 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature