Protein evolution viewed through Escherichia coli protein sequences: introducing the notion of a structural segment of homology, the module

Journal of Molecular Biology
M Riley, B Labedan

Abstract

Paralogous genes are genes which descend from a progenitor gene which has duplicated as an ancestral gene, each copy having diverged prior to speciation. With comprehensive information available on functions of Escherichia coli proteins, analysis of sequence-related E. coli paralogous proteins can give information on the early ancestors of families of proteins now residing in many contemporary organisms, such as the enzymes of metabolism, some kinds of transport mechanisms and some kinds of regulatory mechanisms. In the first step, we have confirmed that E. coli contains a very high proportion of paralogous proteins. Next, we have defined two main classes of paralogous proteins. One class is formed of proteins which contain a unique structural segment homologous to a single set of related proteins. The other class corresponds to proteins which contain more than one structural segment of homology, each segment homologous to unrelated sets of proteins. We define such an independent structural segment of homology as a module. This modular structure (mean length equivalent to 209 amino acids) corresponds often to entire proteins, but there are also proteins that appear to be assembled from two or three independent modules having in...Continue Reading

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Citations

Jul 17, 2008·Comparative and Functional Genomics·Mohamed ZouineBernard Labedan
Jun 26, 1999·Molecular Microbiology·J OscarssonB E Uhlin
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