# Cas12a Mutant Structural Predictions With AlphaFold2 

Materials designed for class [CHBE0165 (Biomolecular Engineering and Design)](https://www.coursicle.com/tufts/courses/CHBE/0165/) Spring 2024.

Content developed by TTS Research Technology

- Shirley Li, PhD, Bioinformatician, xue.li37@tufts.edu         
- Jason Laird, MSc, former Bioinformatics Scientist



## The Research Technology Team

- Consultation on Projects and Grants
- High Performance Compute Cluster
- Workshops

## Prerequisites

- [Download PyMOL](https://access.tufts.edu/pymol)
- [Account on the HPC](https://tufts.qualtrics.com/jfe/form/SV_5bUmpFT0IXeyEfj) (**Note:** To test your account log into [OnDemand](https://ondemand.pax.tufts.edu/). If you can log in, you are all set, if not please reach out to tts-research@tufts.edu)


## Contents

1. [Run AlphaFold2 on Tufts HPC CLI](./01_Run_AlphaFold2_CLI.md)
2. [Run AlphaFold2 on Tufts HPC with Open OnDemand and Accuracy Assessment](./02_Run_AlphaFold2_OpenOndemandApp.md)
3. [Vizualize Predicted Structure with PYMOL](./03_Vizualize_predicted_structure_with_PYMOL.md)
4. Slides for this lecture is [here](./Alphafold_ShirleyLi_CHBE0165_2024-03.pdf).

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