Toby J. Gibson

Short linear motifs - Underexplored players driving Toxoplasma gondii infection

The paper identifies short linear motifs in Toxoplasma gondii secreted proteins using a computational pipeline and validates some predictions experimentally.

Electrostatic interactions compensate energetic frustration in the coupled folding and binding of intrinsically disordered proteins

The paper investigates the energy landscape of coupled folding and binding in intrinsically disordered proteins, finding that electrostatic interactions compensate for energetic frustration.

Systematic discovery of protein interaction interfaces using AlphaFold and experimental validation

The paper evaluates AlphaFold-Multimer for predicting protein interaction interfaces using short linear motifs and validates some predictions experimentally.

Exploring Leishmania linear motifs directing protein secretion, sorting and autophagy

The paper explores Leishmania's protein targeting systems, showing divergence from host organisms and building predictive models for protein localization and function.

Pipeline for transferring annotations between proteins beyond globular domains

The paper develops a pipeline to transfer annotations between disordered proteins using orthologs and multiple sequence alignments, expanding the availability of annotations beyond globular domains.

LeishMANIAdb: a comparative resource for Leishmania proteins

LeishMANIAdb compiles experimental and predicted Leishmania secretomes and host-pathogen interactions to aid in understanding virulence mechanisms and identifying therapeutic targets.

Divergent evolution of a protein-protein interaction revealed through ancestral sequence reconstruction and resurrection

The paper reconstructs and resurrects ancestral sequences of PDZ3 and CRIPT to study the evolutionary dynamics of their interaction, finding it ancient but with reduced affinity in nematodes and insects.

CiliaCarta: An Integrated And Validated Compendium Of Ciliary Genes

The paper identifies 285 candidate ciliary genes using integrated genomic, proteomic, and transcriptomic data, validated by experimental evidence and creating a resource for ciliopathy research.

Conserved SQ and QS motifs in bacterial effectors suggest pathogen interplay with the ATM kinase family during infection

The paper identifies conserved SQ and QS motifs in bacterial effectors that may mimic ATM kinase substrates, suggesting a mechanism by which pathogens modulate host signaling during infection.