Taseef Rahman

The paper uses simulations to analyze residue-level contact networks in IDRs, showing how phosphorylation rewires these networks and how force fields influence residue behavior.

AlphaFold3 pLDDT matches AlphaFold2 at calling disordered residues (Matthews correlation 0.693 vs 0.701); on disorder-containing complexes mean DockQ is similar, but interface features explain less variance (42% vs 58%).

The paper introduces BENDER, a dataset of IDP sequences across 13 taxonomic groups, and shows cross-taxonomic generalization of conformational ensemble predictions.

This paper benchmarks AI structure predictors on fuzzy protein complexes, finding they consistently violate 30% of NOE restraints and show poor helicity correlation with thermodynamic expectations.