Alignment-free metal ion-binding site prediction from protein sequence through pretrained language model and multi-task learning
More than one-third of the proteins contain metal ions in the Protein Data Bank. Correct
identification of metal ion-binding residues is important for understanding protein functions …
identification of metal ion-binding residues is important for understanding protein functions …
A comprehensive review of protein-centric predictors for biomolecular interactions: from proteins to nucleic acids and beyond
Proteins interact with diverse ligands to perform a large number of biological functions, such
as gene expression and signal transduction. Accurate identification of these protein–ligand …
as gene expression and signal transduction. Accurate identification of these protein–ligand …
An ensemble 3D deep-learning model to predict protein metal-binding site
Predicting metal-binding sites in proteins is critical for understanding the protein's biological
function. Here, we develop an ensemble deep convolutional neural network (CNN) method …
function. Here, we develop an ensemble deep convolutional neural network (CNN) method …
M-Ionic: prediction of metal-ion-binding sites from sequence using residue embeddings
Motivation Understanding metal–protein interaction can provide structural and functional
insights into cellular processes. As the number of protein sequences increases, develo** …
insights into cellular processes. As the number of protein sequences increases, develo** …
[HTML][HTML] Predicting the location of coordinated metal ion-ligand binding sites using geometry-aware graph neural networks
More than 50% of proteins bind to metal ions. Interactions between metal ions and proteins,
especially coordinated interactions, are essential for biological functions, such as …
especially coordinated interactions, are essential for biological functions, such as …
BioBrigit, A Hybrid Deep Learning and Knowledge-based Approach to Model Metal Pathways in Proteins: Application to a Di-Copper Tyrosinase
JD Marechal, M Sodupe, JE Sanchez… - bioRxiv, 2024 - biorxiv.org
The interaction of metallic species with proteins has been fundamental in evolution and key
in many physiological processes. How metals bind to proteins also holds promise in many …
in many physiological processes. How metals bind to proteins also holds promise in many …