Multi-Self-Overlap Ensemble for Protein Folding: Ground State Search and Thermodynamics

George Chikenji, Macoto Kikuchi, and Yukito Iba
Phys. Rev. Lett. 83, 1886 – Published 30 August 1999
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Abstract

Long chains of the HP lattice protein model are studied by the multi-self-overlap ensemble Monte Carlo method, which was developed recently by Iba, Chikenji, and Kikuchi. This method successfully finds the lowest energy states reported before for sequences of the chain length N=42100 in two and three dimensions. Moreover, the method realizes the lowest energy state that was ever found in a case of N=100. Finite-temperature properties of these sequences are also investigated by this method. Two successive transitions are observed between the native and random coil states. Thermodynamic analysis suggests that the ground state degeneracy is relevant to the order of the transitions.

  • Received 23 February 1999

DOI:https://doi.org/10.1103/PhysRevLett.83.1886

©1999 American Physical Society

Authors & Affiliations

George Chikenji1, Macoto Kikuchi1, and Yukito Iba2

  • 1Department of Physics, Osaka University, Toyonaka 560-0043, Japan
  • 2The Institute of Statistical Mathematics, Minatoku, Tokyo 106-8569, Japan

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Vol. 83, Iss. 9 — 30 August 1999

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