ESM: Run ESMFold via web interface
Another resource to fold your proteins is ESMFold, which can be accessed in different ways:
- Via the web interface at https://esmatlas.com/resources?action=fold
- Via the ColabFold repository at https://colab.research.google.com/github/sokrypton/ColabFold/blob/main/ESMFold.ipynb
- On the HPC; it is not centrally installed but it is possible to build a virtual environment in which you can run ESMFold. Setting this up is not straightforward though, and thus falls outside the scope of this training session. Feel free to contact jasper.zuallaert [at] vib.be if you would want further instructions on how to do this.
In this exercise, fold a protein of your choice using the web interface of ESMFold (example).
Note that the web interface comes with some disadvantages:
- maximum length of 400
- only single-chain structures can be predicted
- no PAE plots available
- only one prediction at a time