Resources
Use the links below to download software and access workshop materials.
Software Installers
PyMOL
PyMOL installation for Windows and Mac
Other pages
Uniprot Search Page (https://uniprot.org)
Protein Data Bank (https://www.rcsb.org)
AlphaFold Database (https://alphafold.ebi.ac.uk/)
ColabFold (https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/AlphaFold2.ipynb)
AlphaFold3 Server (https://alphafoldserver.com/)
Boltz-2 on TamarindBio (https://app.tamarind.bio/boltz)
TamarindBio Apps (https://app.tamarind.bio/app)
Boltz-2 on NVIDIA (https://build.nvidia.com/mit/boltz2)
ipSAE code github (https://github.com/DunbrackLab/IPSAE)
LIVIA AF/Boltz scoring (including ipSAE) (https://flyark.github.io/LIVIA/universal.html)
ECOD (Evolutionary Classification of Domains) (http://prodata.swmed.edu/ecod/)
TED (The Encyclopedia of Domains) (https://ted.cathdb.info/)
FoldSeek (https://search.foldseek.com/search)
Longer structural analysis and PyMOL videos (https://www.youtube.com/@rolanddunbrack)
Lecture Slides DELPHI Workshop (Utah) (pdf)
Lecture Slides DELPHI Workshop (pptx)
Lecture Slides Fox Chase Bioinformatics Class - basic structural biology (pdf)
Lecture Slides Fox Chase Bioinformatics Class - basic structural biology (pptx)