Nicholas Schnicker

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

AlphaFold developer Google DeepMind to fund CASP as NIH funding falls short Protein structure prediction contest CASP gets temporary funding from Google DeepMind as NIH grant runs out.

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

Disorder meets its match Designed protein pockets recognize intrinsically disordered protein regions

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...

Takes some fiddling but this has worked well.

espript.ibcp.fr/ESPript/ESPr...

SNAP-tag2 for faster and brighter protein labeling - Nature Chemical Biology SNAP-tag is a widespread tool for labeling protein for bioimaging. Now, Kühn et al. report SNAP-tag2 with increased labeling kinetics and brightness, which translates into a better performance in live...

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

CCP4 Study Weekend 2025 - Using software, AI and other methods to advance macromolecular models. - YouTube Recordings of talks from the CCP4 Study Weekend 2025 held at EMCC, Nottingham between 7-9 January 2025. The theme of the meeting was "Using software, AI and ...

The videos for the recent CCP4 Study Weekend 2025 are now available on YouTube.
www.youtube.com/playlist?lis...

Fantastic day sharing knowledge with the brilliant researchers at NIH who valiantly work to advance the frontiers of science for the cause of improving human health. Thank you again for your service 🙏 🇺🇸

a cartoon character is pointing at a potato with the words `` come on do something '' written above it . ALT: a cartoon character is pointing at a potato with the words `` come on do something '' written above it .

Waiting for binder design results…
#denovo #proteindesign

The cryo-em core at kumc is looking for a lab manager. This is an exciting opportunity to join a growing facility. kumc.wd5.myworkdayjobs.com/en-US/kumc-j...

Haha thank you Craig! Of course - you and all the others at PNCC have always been great help!

Very grateful for all of the support from Iowa colleagues and the Carver College of Medicine in addition to @pacificnwcryoem.bsky.social and the other NIH CryoEM Centers and external university facilities/staff that helped us build a #cryoEM community from the beginning.

NIH award notice

Happy to share we got the NoA for the NIH S10 proposal I submitted for a Glacios #cryoEM 🔬 for #IowaResearch #structuralbiology

1/5: Over the last few months, I have been working on an update for the #FollowRelionGracefully dashboard, which offers improved real-time job previews for #cryoEM #Relion jobs.

Photo of workshop attendees standing on the Harvard Quad green in front of Gordon Hall, large stone columned building

11th NIH R25 Train the Trainer SBGrid Consortium workshop at @harvardmed.bsky.social-this one specifically for the #CryoEM Facility leaders. #RELION & #CryoSPARC in @amazonwebservices.bsky.social (AWS) cloud environment. Melissa Chambers & Daniel Stoddard will co-lead the new CryoACCESS initiative.

Motion visualization with ChimeraX

Do you want to visualize motion in protein structures? I've used @chimerax.ucsf.edu and little python code to do just that github.com/schaefer-jh/.... Here is some ABC transporter magic. #LLM assisted #coding

Haha I had just logged into my account to disable messages when it stopped

Introducing Extended PDB IDs at RCSB.org Search, view, and download all PDB structures using their extended PDB ID. wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.

Introducing Extended PDB IDs at RCSB PDB
Search, view, and download all PDB structures using their extended PDB ID.
wwPDB anticipates that all four-character PDB IDs will be exhausted by 2028, after which only 12-character PDB IDs will be issued.
www.rcsb.org/news/fe...

You’ll have to check with @rcsbpdb.bsky.social

It wasn’t my best pour so I figured it best to be open to interpretation

Coffee mug with protein structures on it.

Thanks to @rcsbpdb.bsky.social for a new way to enjoy my morning ☕️
#structurefunction

Next up? 👀 @als-lbnl.bsky.social

US map via scienceimpacts.org visualization of economic loss due to IDC cuts to 15% as part of Feb 7, 2025 executive order, with shading denoting intensity of cuts.

Working with an interdisciplinary team, we have developed a website to communicate how the White House's proposed cuts to health research would cause losses of $16B and 68,500 jobs.

Find out how your community may be impacted.

Explore more at SCIMaP: scienceimpacts.org

a 🧵

Ha thanks I went down a much longer rabbit hole than intended for sure! Nope I always make my own now and found some beans I like from WholeLatteLove. I guess barista is now my backup job 🤷🏻‍♂️😂

Morning ☕️ just got a visual upgrade!
#bottomless #gaggia