TY - JOUR
T1 - How accurate must potentials be for successful modeling of protein folding?
AU - Pande, Vijay S.
AU - Grosberg, Alexander Yu
AU - Tanaka, Toyoichi
PY - 1995
Y1 - 1995
N2 - Protein sequences are believed to have been selected to provide the stability of, and reliable renaturation to, an encoded unique spatial fold. In recently proposed theoretical schemes, this selection is modeled as "minimal frustration," or "optimal energy," of the desirable target conformation over all possible sequences, such that the "design" of the sequence is governed by the interactions between monomers. With replica mean field theory, we examine the possibility to reconstruct the renaturation, or freezing transition, of the "designed" heteropolymer given the inevitable errors in the determination of interaction energies, that is, the difference between sets (matrices) of interactions governing chain design and conformations, respectively. We find that the possibility of folding to the designed conformation is controlled by the correlations of the elements of the design and renaturation interaction matrices; unlike random heteropolymers, the ground state of designed heteropolymers is sufficiently stable, such that even a substantial error in the interaction energy should still yield correct renaturation.
AB - Protein sequences are believed to have been selected to provide the stability of, and reliable renaturation to, an encoded unique spatial fold. In recently proposed theoretical schemes, this selection is modeled as "minimal frustration," or "optimal energy," of the desirable target conformation over all possible sequences, such that the "design" of the sequence is governed by the interactions between monomers. With replica mean field theory, we examine the possibility to reconstruct the renaturation, or freezing transition, of the "designed" heteropolymer given the inevitable errors in the determination of interaction energies, that is, the difference between sets (matrices) of interactions governing chain design and conformations, respectively. We find that the possibility of folding to the designed conformation is controlled by the correlations of the elements of the design and renaturation interaction matrices; unlike random heteropolymers, the ground state of designed heteropolymers is sufficiently stable, such that even a substantial error in the interaction energy should still yield correct renaturation.
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U2 - 10.1063/1.470009
DO - 10.1063/1.470009
M3 - Article
AN - SCOPUS:0001222466
SN - 0021-9606
VL - 103
SP - 9482
EP - 9491
JO - The Journal of Chemical Physics
JF - The Journal of Chemical Physics
IS - 21
ER -