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[http://www.ncbi.nlm.nih.gov/pubmed/11524371 AL2CO] software
 
[http://www.ncbi.nlm.nih.gov/pubmed/11524371 AL2CO] software
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[http://www.mcb.ucdavis.edu/faculty-labs/lagarias/homolmapper_home/homolmapper%20web%20page.htm Homolmapper]  web server: you can map several conserved properties onto your structures, not just plain sequence.
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