Predicting Order and Disorder for β-Peptide Foldamers in Water

Nemeth, LJ [Németh, Lukács (biofizikus), szerző]; Hegedus, Z [Hegedüs, Zsófia (gyógyszerkémia), szerző]; Martinek, TA [Martinek, Tamás (Gyógyszerkémia), szerző] Gyógyszerkémiai Intézet (SZTE / GYTK)

Angol nyelvű Tudományos Szakcikk (Folyóiratcikk)
  • SJR Scopus - Chemical Engineering (miscellaneous): D1
Azonosítók
Following a quantitative validation approach, we tested the AMBER ff03 and GAFF force fields with the TIP3P explicit water model in molecular dynamic simulations of beta-peptide foldamers. The test sequences were selected to represent a wide range of folding behavior in water: compact helix, strand mimetic geometry, and the state of disorder. The combination AMBER ff03-TIP3P successfully predicted the experimentally observed conformational properties and reproduced the NOE distances and backbone (3)J coupling data at a good level. GAFF was unable to produce folded structures correctly due to its biased torsion potentials. We can recommend AMBER ff03-TIP3P for simulations involving beta-peptide sequences in aqueous media including ordered and disordered structures.
Hivatkozás stílusok: IEEEACMAPAChicagoHarvardCSL
2019-09-15 08:13