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The European Physical Journal E

, Volume 13, Issue 1, pp 15–25 | Cite as

Conformation-dependent sequence design: evolutionary approach

  • A. V. Chertovich
  • E. N. Govorun
  • V. A. Ivanov
  • P. G. Khalatur
  • A. R. Khokhlov
Article

Abstract.

A new modification of evolutionary approach to sequence design of copolymers has been proposed. A model of step-by-step evolution of a two-letter (HP) copolymer sequence has been studied by means of a coarse-grained Monte Carlo algorithm. The conditions for accepting a change in the primary sequence depend on the spatial conformation of HP-copolymer chain. This leads to a coupling between sequence and conformation and to formation of protein-like conformations and primary sequences (for some values of parameters of the model) independently of initial sequence and/or conformation. Simple theory describing these computer simulation observations is developed.

Keywords

Computer Simulation Primary Sequence Evolutionary Approach Simple Theory Sequence Design 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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Copyright information

© Springer-Verlag Berlin/Heidelberg 2004

Authors and Affiliations

  • A. V. Chertovich
    • 1
  • E. N. Govorun
    • 1
  • V. A. Ivanov
    • 1
  • P. G. Khalatur
    • 2
    • 3
  • A. R. Khokhlov
    • 1
    • 3
  1. 1.Physics DepartmentMoscow State UniversityMoscowRussia
  2. 2.Department of Physical ChemistryTver State UniversityTverRussia
  3. 3.Department of Polymer ScienceUniversity of UlmUlmGermany

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