Paper Info
Title
Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites
Abstract
We performed an exhaustive search for local structural similarities in an ensemble of non-redundant protein functional sites. With the purpose of finding new examples of convergent evolution, we selected only those matching sites composed of structural regions whose residue order is inverted in the relative protein sequences.A novel case of local analogy was detected between members of the ABC transporter and of the HprK/P families in their ATP binding site. This case cannot be derived by events of circular permutation since the residues of one of the region pairs are located in reverse order in the sequence of the two protein families. One of the analogous binding sites, the one identified in HprK/P, is known to also bind pyrophosphate, which is used as preferred energy source in its kinase and phosphorylase activity.The discovery of this striking molecular similarity, also associated to a functional similarity, may help in suggesting new experiments aimed at a deeper understanding of members of the ABC transporter family known to be involved in many serious human diseases.
Year
DOI
Venue
2007
10.1186/1471-2105-8-S1-S24
BMC Bioinformatics
Keywords
Field
DocType
amino acid sequence,binding site,convergent evolution,protein structure,abc transporter,exhaustive search,proteins,binding sites,conserved sequence,algorithms,protein binding,protein family,sequence alignment,bioinformatics,microarrays,protein sequence
Sequence alignment,Conserved sequence,Brute-force search,Biology,Bioinformatics,Genetics,Convergent evolution,Protein structure
Journal
Volume
Issue
ISSN
8
S1
1471-2105
Citations 
PageRank 
References 
3
0.42
6
Authors
4
Name
Order
Citations
PageRank
Gabriele Ausiello130123.59
Daniele Peluso247522.09
Allegra Via361644.62
Manuela Helmer-Citterich445633.41