10.1371/journal.pone.0117874.g004
Hakime Öztürk
Hakime
Öztürk
Elif Ozkirimli
Elif
Ozkirimli
Arzucan Özgür
Arzucan
Özgür
Hierarchical clustering on the ligand data set.
Public Library of Science
2015
similarity
Penicillin Binding Proteins
ligand
lactamase
edge weight settings
pbp
lactam
protein
information
cell wall biosynthesis
Antibiotic resistance
Protein Data Bank
model
2015-02-17 02:42:37
Figure
https://plos.figshare.com/articles/figure/_Hierarchical_clustering_on_the_ligand_data_set_/1310626
<p>Average hierarchical clustering based on pairwise ligand similarity for 269 ligands is performed using ChemMine [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0117874#pone.0117874.ref058" target="_blank">58</a>]. The phylogenetic tree representing the 269 ligands in our data set is visualized using ITOL [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0117874#pone.0117874.ref056" target="_blank">56</a>, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0117874#pone.0117874.ref057" target="_blank">57</a>]. A ligand that binds to a specific class of proteins is colored with the corresponding color of that class. Uncolored parts indicate ligands that bind to proteins from different classes or ligands that bind to proteins with no pre-defined class.</p>