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- W2115925919 endingPage "1456" @default.
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- W2115925919 abstract "For computational studies of protein folding, proteins with both helical and β-sheet secondary structure elements are very challenging, as they expose subtle biases of the physical models. Here, we present reproducible folding of a 92 residue α/β protein (residues 3–94 of Top7, PDB ID: 1QYS) in computer simulations starting from random initial conformations using a transferable physical model which has been previously shown to describe the folding and thermodynamic properties of about 20 other smaller proteins of different folds. Top7 is a de novo designed protein with two α-helices and a five stranded β-sheet. Experimentally, it is known to be unusually stable for its size, and its folding transition distinctly deviates from the two-state behavior commonly seen in natural single domain proteins. In our all-atom implicit solvent parallel tempering Monte Carlo simulations, Top7 shows a rapid transition to a group of states with high native-like secondary structure, and a much slower subsequent transition to the native state with a root mean square deviation of about 3.5 Å from the experimentally determined structure. Consistent with experiments, we find Top7 to be thermally extremely stable, although the simulations also find a large number of very stable non-native states with high native-like secondary structure. Proteins 2013; 81:1446–1456. © 2013 Wiley Periodicals, Inc." @default.
- W2115925919 created "2016-06-24" @default.
- W2115925919 creator A5082069859 @default.
- W2115925919 creator A5089826765 @default.
- W2115925919 creator A5085046472 @default.
- W2115925919 date "2013-07-02" @default.
- W2115925919 modified "2023-09-26" @default.
- W2115925919 title "Folding of Top7 in unbiased all-atom Monte Carlo simulations" @default.
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- W2115925919 doi "https://doi.org/10.1002/prot.24295" @default.
- W2115925919 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/23553942" @default.
- W2115925919 hasPublicationYear "2013" @default.
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