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RCSB PDB has launched a chatbot to answer general questions about structure deposition, biocuration, validation or PDB policies.
Try it today and rate the response: rcsb-deposit-help.rc...
I couldn’t find info on typical GPU memory usage - do you have a sense of the general requirements?
Chart builder: an interactive tool for user driven data visualization in the electron microscopy data bank pubmed.ncbi.nlm.nih.gov/41868252/ #cryoEM
AlphaFold database has entered the era of complexes. Together with NVIDIA, DeepMind and EBI, we use ColabFold, OpenFold and MMseqs2-GPU to predict ~31 million complexes (homo & hetro-dimers) resulting in 1.8 million high-quality predictions
📄 research.nvidia.com/labs/dbr/ass...
🌐 alphafold.ebi.ac.uk
Figure 1. Cryo-EM of abundant protein complexes in native membranes.
Figure 2. Cryo-EM of membrane proteins in vesicles.
Figure 3. 3D reconstruction of V-ATPase in native synaptic vesicle membranes.
Figure 4. Generation of membrane vesicles for structure determination of proteins in their native lipid bilayer.
I've written a review on what I think is an extremely exciting direction in cryo-EM:
Cryo-EM of endogenous membrane proteins in their native lipid bilayer
Open access in Quarterly Reviews of Biophysics:
doi.org/10.1017/S003...
📣 The 2026 Midwest DNA Repair Symposium is coming to Kansas City (registration is open)
🗓 May 30–31, 2026
✨ Talks will be selected from abstracts, with a strong focus on trainees and new investigators.
Please RT & share with your labs!
🔗 sites.google.com/view/kumc-mi...
As construction of the room for our new Glacios CryoEM comes to an end - here's a quick look at the process.
*Not pictured: lots of people to thank, many meetings, phone calls, challenges, delays, and teamwork.
I learned a lot during this process - now I'm ready for installation and data collection!
🎉 Joint paper from the Freudenthal and @tmweaver.bsky.social Labs!
Abbey Vito’s first publication discusses a tug-of-war between BER enzymes and chromatin for access to damaged DNA, a battle central to genome stability.
Built on Tyler's foundational work! tinyurl.com/ywkt2bt5
Happening this week! Register for the Thursday October 30 Virtual Office Hour on Structure Summary Pages
Learn how a exploring a single PDB structure at RCSB PDB can lead to visualizations, analyses, and searches across the archive
Chris Russo and Anastasiia Gusach have developed a new method to prepare #cryoEM samples that avoids protein damage during freezing
Read more: www2.mrc-lmb.cam.ac.uk/a-new-method...
#LMBResearch
Another one!
Great info here!
In another preprint from the @brianhie.bsky.social Lab and @synbiogaolab.bsky.social, they introduce Germinal, a generative AI system for de novo antibody design.
Germinal produces functional nanobodies in just dozens of tests, making custom antibody design more accessible than ever before.
Love this pipeline! Congrats to all involved!
🧪 Skip the trial and error for structure determination of soluble proteins. Join the #webinar 10/8 for a gene-to-structure case study of CYP3A4, a 57 kDa cytochrome P450 monooxygenase, solved to 3.1 Å by #cryoEM.
nimgs.zoom.us/webinar/regi...
Major update from #SCIMaP...
FY26 House district level scorecards.
Our FY26 budget analysis tab includes clickable district info, breaking down the expected economic and job loss given the White House's budget proposal that would slash NIH research funding by >40%.
scienceimpacts.org/fy26
Also curious what the creators @martinpacesa.bsky.social and others use for visualizing results?
Just made my first webapp mostly for analyzing structures from #BindCraft
👉🏼 pdb-viewer.lovable.app
It’s bare 🦴 at this point but curious if others find something like this useful and features they’d like?
🧬🧶
We’ve refreshed the AlphaFold Database Entry Pages!
Explore the cleaner design, improved 3D viewer, and easier access from any device 👇
www.alphafold.ebi.ac.uk/entry/P04637
Or read more👇
www.ebi.ac.uk/about/news/u...
#AlphaFold #Bioinformatics #UXForScience
@pdbeurope.bsky.social
Affinity-ligand purification of native human low-abundance multi-protein complexes for structure determination www.biorxiv.org/content/10.1101/2025.07.31.667873v1 #cryoEM
CryoSift – An accessible and automated CNN-driven tool for cryo-EM 2D class selection
Check out our new preprint from the @landerlab.bsky.social, Stagg-Lab and Cianfrocco-Lab: CryoSift - An accessible and automated CNN-driven tool for cryo-EM 2D class selection www.biorxiv.org/content/10.1...
Happy testing: cryosift.org #cryoEM #CNN
NEW from me at STAT:
We've learned that DeepMind is going to fund CASP, the protein structure competition that brought Google DeepMind's #AlphaFold to prominence (and a Nobel Prize), as its NIH funding runs out.
More @statnews.com:
www.statnews.com/2025/07/21/c...
🖥️🩺🧪🧬 #bioML
Maybe not necessary in your case with high seq identity but also nice since it lets you show the secondary structure alignment as well
Designed protein pockets recognize intrinsically disordered protein regions @science.org
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
www.statnews.com/2025/07/17/n...
Finally out in Nature Chem Bio:
SNAP-tag2 for faster and brighter protein labeling
www.nature.com/articles/s41...
Thank you Steffi and Veselin.
CASP is the main reason the protein structure prediction technology and research field advanced over the last 30 years. And the main reason AI based methods have been accepted and widely applied in biology. So shortsighted of NIH to postpone or even halt funding. John Moult is a scientific hero.
We have written up a tutorial on how to run BindCraft, how to prepare your input PDB, how to select hotspots, and various other tips and tricks to get the most out of binder design!
github.com/martinpacesa...
🧪 We're beta testing - and we want your thoughts!
Try the redesigned PDBe entry pages & let us know:
🔸 What’s working?
🔸 What’s confusing?
🔸 What features do you miss?
💬 Feedback form: tinyurl.com/pdbe-beta-form
#PDBeBeta #Bioinformatics #Biochemistry #Science #UserVoice
