LARGE LANGUAGE MODELS CAN BECOME STRONG SELF-DETOXIFIERS
Ching-Yun Ko, Pin-Yu Chen, et al.
ICLR 2025
We study the role of sequence and solvation in shaping the temperature-pressure (T, P) conformational landscape of model heteropolymers with a coarse-grained model. We design foldable primarily hydrophobic sequences with fixed polar content in water at physiological conditions, which demonstrate (T, P) dependence of conformational stability similar to biological proteins. Inherent helicity emerges as a result of local polar-polar interactions in the sequences that mimic biological α helices. The helical propensity is reduced upon solvation and remains unaltered at cold T and high P, which is driven by the T-P induced changes of the hydration shell. Consequently, at nonphysiological conditions the weakening of hydrophobic interactions facilitates population of non-native, helical, compact conformations stabilized through direct nonlocal interactions between polar residues. © 2013 American Physical Society.
Ching-Yun Ko, Pin-Yu Chen, et al.
ICLR 2025
Payel Das, Jonathan A. King, et al.
PNAS
Payel Das
Nanoscale
Payel Das, Brian Murray, et al.
Biophysical Journal