Monte Carlo simulation of a statistical mechanical model of multiple protein sequence alignment.
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ABSTRACT:
SUBMITTER: Kinjo AR
PROVIDER: S-EPMC5551269 | biostudies-literature | 2017
REPOSITORIES: biostudies-literature
Publications
Monte Carlo simulation of a statistical mechanical model of multiple protein sequence alignment.
Biophysics and physicobiology 20170712
A grand canonical Monte Carlo (MC) algorithm is presented for studying the lattice gas model (LGM) of multiple protein sequence alignment, which coherently combines long-range interactions and variable-length insertions. MC simulations are used for both parameter optimization of the model and production runs to explore the sequence subspace around a given protein family. In this Note, I describe the details of the MC algorithm as well as some preliminary results of MC simulations with various te ...[more]
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