Analytic markovian rates for generalized protein structure evolution.

ABSTRACT: A general understanding of the complex phenomenon of protein evolution requires the accurate description of the constraints that define the sub-space of proteins with mutations that do not appreciably reduce the fitness of the organism. Such constraints can have multiple origins, in this work we present a model for constrained evolutionary trajectories represented by a markovian process throughout a set of protein-like structures artificially constructed to be topological intermediates between the structure of two natural occurring proteins. The number and type of intermediate steps defines how constrained the total evolutionary process is. By using a coarse-grained representation for the protein structures, we derive an analytic formulation of the transition rates between each of the inte

SUBMITTER: Coluzza I 

PROVIDER: S-EPMC3367531 | biostudies-literature | 2012

REPOSITORIES: biostudies-literature