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J Comput Biol. 2006 Mar;13(2):351-63.

Graph theoretical insights into evolution of multidomain proteins.

Author information

  • 1National Center for Biotechnology Information, US National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA. prytyck@mail.nih.gov

Abstract

We study properties of multidomain proteins from a graph theoretical perspective. In particular, we demonstrate connections between properties of the domain overlap graph and certain variants of Dollo parsimony models. We apply our graph theoretical results to address several interrelated questions: do proteins acquire new domains infrequently, or often enough that the same combinations of domains will be created repeatedly through independent events? Once domain architectures are created do they persist? In other words, is the existence of ancestral proteins with domain compositions not observed in contemporary proteins unlikely? Our experimental results indicate that independent merges of domain pairs are not uncommon in large superfamilies.

PMID:
16597245
[PubMed - indexed for MEDLINE]
PMCID:
PMC1815482
Free PMC Article

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