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Sagar Khavnekar
@cryosagar.subspatial.org

Hey #teamtomo checkout our #teamscience approach to #cellbio #cryoET I can’t thank @cellarchlab.com enough for this one 😍😍 Awesome team science from @mpibiochem.bsky.social @biozentrum.bsky.social Thermo Fisher Scientific and more #firstpost on Bluesky www.biorxiv.org/content/10.1...

biorxiv.orgTowards community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtiiIn situ cryo-electron tomography (cryo-ET) has emerged as the method of choice to investigate structures of biomolecules in their native context. However, challenges remain in the efficient production...
Hiren Joshi
@glyco.me

This looks amazing - for a rube like me who has never touched this kind of data, what are the perspectives on searching this for specific proteins (assuming their AF models are mostly right)? Have people worked out search algorithms to search by PDB file?

Hiren Joshi
@glyco.me

We were involved in a paper earlier this year on C Reinhardtii, and I'm in particular wondering about one enzyme: CHLRE_01g031800v5, or whether there's resolution enough to see modifications on some of these proteins. www.nature.com/articles/s41...

nature.comMolecular-level architecture of Chlamydomonas reinhardtii’s glycoprotein-rich cell wall - Nature CommunicationsChlamydomonas reinhardtii produces a glycoprotein-rich cell wall. Using nuclear magnetic resonance and mass spectrometry approaches, this study reveals unprecedented details on its protein and carbohy...
Ben Engel
@cellarchlab.com

Thanks Hiren! Yes, one approach is to perform template- or AI-based searches on this data using models generated from structure prediction (AF etc). That's an exciting frontier to explore. There's plenty of cell wall in this dataset, but I'm not sure if your protein is structured & abundant enough?🧪

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Hiren Joshi
@glyco.me

Thanks for answering questions Ben :) I agree the modified proteins may be hard to see, but the enzyme doing this should be well ordered, and in the ER somewhere. I’ll park idea for now until the software matures for this! It blows my mind thinking about what we can currently image.