incredibly useful tool for generating publication quality PAE plots!

So excited to share this work from the Walker Lab, now online Nature Microbiology (nature.com/articles/s4156…), in which we uncover a general strategy for bacterial cell envelope polymer acylation using teichoic acid ᴅ-alanylation as a paradigm! A 🧵 below for anyone interested:

So very excited to share this preprint! We’ve found that bacteria use an evolutionarily distinct but incredibly similar mechanism to eukaryotes of transducing mechanical stimuli across the lipid bilayer. Starring SEAL (SEA-like) domains 🦭: biorxiv.org/content/10.110…

How does a progenitor cell differentially express genes in daughter cells after asymmetric division? @Sylvia_Char proposes an answer for how #Bacillus subtilis kicks this process off during sporulation . Check out her preprint... biorxiv.org/content/10.110…

Excited to share that our paper on DONSON’s role in eukaryotic replication initiation is now out in Science! Congrats to the whole Walter lab team and our collaborators in the Jackson lab! science.org/doi/full/10.11…

go AF multimer & go Ernst Schmid!

Out now nature we report the structural basis of Gabija defense and how the anti-defense phage protein Gad1 wraps around Gabija in an octameric web for immune evasion! 🐙🕸 rdcu.be/drLOR #b3d #MolecularNodes Brady Johnston

Really happy to have this officially published! Thanks to Shen Lab, Simonetta Gribaldo, and Najwa for their amazing support! Give it a read if you’re interested in bacterial cell division, spore formation, and the evolution of PG synthases that drive them: nature.com/articles/s4146…

B. subtilis 🤝 literal sauna

How does a progenitor cell differentially express genes in daughter cells after asymmetric division? @Sylvia_Char 's fancy microscopy in her paper PNASNews says the division machinery itself positions a transcription activator asymmetrically! pnas.org/doi/10.1073/pn…

Predictomes: A classifier-curated database of AlphaFold-modeled protein-protein interactions biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Impressive work on a classifier to distinguish likely true AF-multimer predictions from false positives. A bacterial classifier next please!

Bacillus subtilis uses the SigM signaling pathway to prioritize the use of its lipid carrier for cell wall synthesis PLOS Biology by Ian Roney and David Rudner journals.plos.org/plosbiology/ar…

Super excited to be releasing AlphaFold 3 today, developed by Isomorphic Labs and Google DeepMind: our next generation AI model for predicting the biomolecular structures and interactions of proteins, DNA, RNA, small molecules, and more: bit.ly/44yfaCw 1/

Riding the #AlphaFold3 wave with a new analysis tool. It’s super new/unpolished, but would love to get community feedback! Extract and filter residue level interaction data from your AF3 server prediction zip files! Try it here: predictomes.org/tools/af3/

another great year for Boston Bacterial Meeting (BBM)! huge shoutout to all of the presenters, the OC, and to Laurent Dubois and Molly Sargen for running the whole show (& for incredible crisis management when BBM went dark)

Excited to share that our new preprint is out! We used #AlphaFold multimer to screen 7000+ nuclear proteins to find new nucleosome acidic patch binders. Great collaboration between Johannes Walter and Lucas Farnung. biorxiv.org/content/10.110…

Interactively browse all the predicted structures here: predictomes.org/view/acidicpat…

Make publication ready figures from your #AlphaFold PAE files. Works on multimer and AlphaFold 3 files. Customize colors and export as an SVG for editing in illustrator! thecodingbiologist.com/tools/pae.html