The structural biology collection is maintained by the Australian Structural Biology Community and endorsed by Australian BioCommons.
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Skip resource table| Resource | Description | Topic(s) | Format | Provider |
|---|---|---|---|---|
| AlphaFold2, OpenFold, Protein Language Models and Beyond | Nazim Bouatta | Detailed and lucid talk on understanding the machine learning concepts behind AI protein structure prediction methods
|
Short Video | Community member | |
| AlphaFold 5 minute explainer - Medical Journal | Overview of the AlphaFold pipeline by the New England Journal of Medicine
|
Short Video | NEJM | |
| AlphaFold3 explainer | A visual walkthrough of the AlphaFold3 architecture, with more details and diagrams than you were probably looking for.
|
Structure prediction | Guide | Community member |
| Amber tutorial | Molecular Dynamics simulation tutorials
|
Molecular dynamics | Guide | Community member |
| Biomolecular Structure Prediction Tools | Lists state-of-the-art and emerging tools for Biomolecular Structure Prediction.
|
Structure prediction | Guide | Community member |
| BLAST tutorial | Short how-to guide on using BLAST from the command line
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Guide | tinybio | |
| Boston Protein Design and Modeling Club | ~1hr talks by method developers on recent breakthroughs in protein modelling
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Webinar | Community member | |
| Brady Johnston Blender tutorials | Blender tutorials for protein animations
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Short Video | Community member | |
| ChimeraX cavity visualisation | ChimeraX how-to
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Guide | Community member | |
| ChimeraX outline selected area | ChimeraX how-to
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Guide | Community member | |
| ChimeraX recipes | Protein visualisation guides for UCSF ChimeraX
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Protein visualisation | Guide | Community member |
| ChimeraX tutorials | Playlist of tutorials on how to use ChimeraX with command lines
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Short Video | Community member | |
| ColabDesign notebooks | Google Colab notebooks for running protein design
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Guide | Community member | |
| ColabFold tutorial | Three short tutorials for running ColabFold
|
Structure prediction | Guide | Community member |
| EMBL-EBI AlphaFold Guide | The best way to get up to competency with using an interpreting AlphaFold. Should be done by all grad students using AF
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Structure prediction | Online tutorial | EMBL-EBI |
| European Centre of Excellence for Computational Biomolecular Research | Talks focused on molecular dynamics simulations and computational chemistry
|
Short Video | Community member | |
| GROMACS tutorials | Molecular Dynamics simulation tutorials
|
Molecular dynamics | Guide | Community member |
| GROMACS tutorials | Molecular Dynamics simulation tutorials
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Molecular dynamics | Guide | Community member |
| HH-suite tutorial | User guide for running Hiden Markov Models of protein sequences on the command line
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Guide | Community member | |
| HMMER tutorial | User guide for running HMMER on the command line
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Guide | Community member | |
| LAMMPS tutorials | Molecular Dynamics simulation tutorials
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Molecular dynamics | Guide | Community member |
| Luminous Lab Blender tutorials | Blender tutorials for protein animations
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Short Video | Community member | |
| MMseqs2 tutorial | User guide for running MMseqs from the command line
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Guide | Community member | |
| NeuroSnap protein design videos | 100 second videos on how to use various protein tools. Guides are with their clean proprietary interface
|
Short Video | Community member | |
| Pyrosetta tutorials | Collection of how-to guides for protein design
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Guide | Community member | |
| RFDiffusion | Walkthrough guide on running RFDiffusion
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Guide | Community member | |
| Rosetta tutorial | User guide on protein design with Rosetta
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Guide | Community member | |
| Running ColabFold notebook on a HPC | Covers basics of ssh and jupyter notebooks on a HPC
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Guide | Community member | |
| Structural Biology Grid Consortium Talk Series | Talks focused on CryoEM but also computational structural biology and protein design
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Short Video | Community member |