Chytropsin

Chytrid Opsin project for identification and phylogenetics

• models
  • shows the structure models
    1. 1U19.pdb
    • Bovine opsin x-ray structure (doi:10.1016/j.jmb.2004.07.044)
    2. 2Z73.pdb
    • Squid opsin x-ray structure (doi:10.1038/nature06925)
    3. Am00698_iT_model3.pdb
    • Allomyces macrogynus opsin, modeled using iTasser (model 3 selected as optimal)
    4. Bd04847_mod.pdb
    • Batrachochytrium dendrobatidis opsin, modeled using Modeller
    5. Sp00350_iT_model1_manip.pdb
    • Spizellomyces punctatus opsin, modeled using iTasser (model 1 selected as optimal)
    • Manual correction of lysine orientaion using general Amber force field (GAFF) in Avogadro
• sequences
  • sampled sequencs for the chytrids and related species
• templates
  • 3D structures of the aligned regions of the threading templates
• scripts
  • analysis scripts
• trees
  • phylogenetic trees from the analyses
• genomes.tab
  • data sources

These data support the publication: Ahrendt SR, Medina EM, Chang CA, Stajich JE. Exploring the binding properties and structural stability of an opsin in the chytrid Spizellomyces punctatus using comparative and molecular modeling. PeerJ 2017 5:e3206. doi: 10.7717/peerj.3206