Structure based phylogenic tree

Question

[edencoza]

Hi,

I have to do a structure-based phylogenic tree of proteins for a student project in bioinformatics. Does someone know how to do that ?

Thank you in advance!

[Asaf]

The key is finding a distance function between two genomes. Enjoy your HW.

[natasha.sernova]

See this rather old post :

Structure-Based Phylogenetic Analysis

and this artictle below:

http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0135507

Structure-Based Phylogenetic Analysis of the Lipocalin Superfamily

The following paper is 12 years old, but it may be useful as well:

Structure-Based Phylogeny of the Metallo-β-Lactamases

http://aac.asm.org/content/49/7/2778.full