Boston Protein Design and Modeling Club

We signed a new research collaboration and license agreement! @aiproteins.com will design and optimize de novo #miniproteins to multiple targets, and Astellas Pharma will do development & commercialization. This division of labor will help get new medicines to patients with the urgency they deserve.

If you missed Jody Mou's terrific seminar back in March where she presented a bunch of unpublished data from her work in @nickpolizzi.bsky.social's lab, you can finally get all caught up 👇 youtu.be/SdkBhhBWZWk and pre-print: doi.org/10.64898/202...

If you missed the superb lecture last week by Chris Norn, have no fear because you can check out the recording 👇 youtu.be/czkQXg0wwrw

Researchers from @aiproteins.com introduce a streamlined workflow that could reshape how labs produce proteins at scale. The method tackles key bottlenecks across the entire protein production pipeline and is designed to be fully compatible with automation. Read more: zurl.co/kAHMW

quick reminder to join us at DFCI tonight to see Chris Norn!

If you missed Natasha Murakowska's really great seminar the other week, don't fret as you can check out the recording 👇 youtu.be/tjAPYPpQylo

ʙɪɴᴅᴄʀᴀꜰᴛ2 is out, and we're not waiting for the paper. The full code drops today, free for academic and industry use. We're releasing it early so you can start designing right now, and bring its full power to the current Adaptyv competition. github.com/PacesaLab/Bi...

We moved our next meeting up by 2 weeks so Chris Norn can come present while he's in town! Join us on Wednesday, September 30th 2026 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social "De novo design of miniproteins targeting GPCRs" bpdmc.org

We always strive for our work to substantially benefit the greater scientific community, and it's such a thrill every time it happens. A massive thank you to @addgene.bsky.social for amplifying the impact of researchers everywhere! 🧵👇

If you missed @jeffreyjgray.bsky.social's wicked awesome seminar back in February where he presented a ton of unpublished data, don't worry because you can finally get all caught up 👇 youtu.be/hJqgu2amqI0

Quick reminder to join us at MIT tonight to see Natasha Murakowska give a great talk!

🧬 Figure Friday AI is making protein design faster, but can protein production keep up? Edson Noriega, Chris Bahl & colleagues developed a high-throughput workflow for rapid protein purification, demonstrated across 96 diverse proteins.

Come join us on Wednesday, September 9th 2026 at 7pm EDT in Room 181, Building 68, @mit.edu to see Natasha Murakowska! "Quantitative Affinity Data at Scale: Addressing the Data Bottleneck in AI-Enabled Protein Design"

🧬 Want to stay updated on protein science? Check out the @bpdmc.org monthly presentation series! Recent topics: • Computational antibody design • Energy-based models & structure • De novo small-molecule induced changes Learn more, watch past presentations, and join the community at bpdmc.org.

If you weren't able to make it out for Jeffrey Chang's marvelous seminar this week, you can check out the recording 👇 youtu.be/q3Xn2-TIZEo

Quick reminder to join us tonight at DCFI for a super exciting talk by Jeffrey Chang!

Happening tonight! Come join in person or on zoom to hear Jeffrey talk about his work. Questions from zoom audience encouraged! www.bpdmc.org/schedule

The data, code, and detailed protocols are all available on github github.com/aiproteins/h... and all the plasmids are available on addgene www.addgene.org/233685/ www.addgene.org/233686/ www.addgene.org/kits/bahl-su...

Every protein designer knows that producing & testing designed proteins is a foundational capability for our field, & this is still pretty challenging for a lot of folks. This is why I'm delighted to share our work to make high-throughput protein production more accessible dx.doi.org/10.1002/pro....

We can design "static" binders routinely now, but design of "dynamic" shape-changing proteins has remained quite hard. Jeffrey Chang and I asked: why can't we couple small-molecule binding to shape change? After all, natural proteins do it every day. In a new preprint, we show how it can be done. 🧵

Next week, Jeffrey Chang from @nickpolizzi.bsky.social's lab will present cutting-edge work from a pre-print that just came out today! Wednesday, August 12th 2026, 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social "De novo design of small-molecule-induced conformational change"

If you missed James Roney's stellar talk last night, have no fear because you can check out the recording  👇 youtu.be/oZZumtlUXag

quick reminder to join us at @mit.edu tonight for an awesome talk by James Roney from @sokrypton.org's lab!

I hope everyone had a great 4th of July, and we've got a great seminar for you this week by James Roney from @sokrypton.org's lab! Join us this Wednesday, July 8th 2026 at 7pm EDT in Room 181, Building 68, @mit.edu "Energy-Based Models of Protein Structure, Dynamics, and Folding" bpdmc.org

If you weren't able to make it out to MIT last month for Foster Birnbaum's outstanding seminar, you can now check out the recording 👇 youtu.be/w-NddBw2FJk

Three weeks ago, we welcomed the local scientific community to join us at our headquarters in Kenmore Square for the inaugural lecture in the AI Proteins Seminar Series. Our speaker Neil King from @uwproteindesign.bsky.social delivered a superb seminar. Check it out 👇 youtu.be/OPRMfRnlx1k

quick reminder to head over to @mit.edu tonight for a great seminar!

⏰ Tomorrow! Join our webinar, Introduction to Protein Design for Africa, featuring speakers from AI Proteins, STEAMulater, Minimal Bio, and Nostrum Biodiscovery. Learn how protein design is advancing innovation and accessibility around the world! Register: us06web.zoom.us/webinar/regi...

Thank you to everyone who attended the inaugural lecture in the AI Proteins Seminar Series today. Neil King @kinglabipd.bsky.social gave a fantastic talk to a packed house!

We're delighted to kick off our new seminar series, and the inaugural speaker is none other than Neil King from the Institute for Protein Design, University of Washington "ML-based design of nanoparticle vaccines" June 3rd, 2026 12:00 PM – 1:00 PM EDT

Ariel Tennenhouse gave a stellar talk this week! Don't fret if you weren't in the room last Wednesday night because you can check out the recording 👇 youtu.be/cQu6yUZINgo

We managed to line up another fantastic speaker from out of town this month thanks to #PEGSBoston! Come see Ariel Tennenhouse present on Wednesday, May 13th 2026 at 7pm EDT in Room 181, Building 68, @mit.edu "Computational design of antibody repertoires" bpdmc.org

Prof. Frank Noé is a leading figure at the intersection of machine learning and molecular science, with pioneering contributions that are reshaping our field. Hear his perspective at European RosettaCon 2026. Early bird registration closes May 31. europeanrosettacon.org

Really fun and challenging (!) discussion with @cdbahl.com on BindCraft, the state of binder design, the oustanding challenges and perhaps also some misconceptions in the field 💫 www.healthtech.com/the-chain/ma...

If you missed Isaac Lutz's awesome seminar this week where he showcased state-of-the-art protein design starting from the days of physics-based energy functions all the way to modern agentic workflows, then you'll definitely want to check out the recording 👇 youtu.be/rSfSWc9wdDg

Quick reminder to join us at @danafarber.bsky.social tonight for a great talk by Isaac Lutz!

No joke, we've got an exciting seminar this month from Isaac Lutz Wednesday, April 8th 2026 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social "Creativity at Scale: Problem Formulation as the Frontier of Protein Design" bpdmc.org

Today is the last day to register for Summer RosettaCon 2026 at the early bird rate. We hope you’ll join us in Seattle, WA as we gather and discuss this year’s theme, “Biomolecule Engineering: From Principle to Practice.” Register today! rosettacon.org

We've got two more positions open for RAs to join AI Proteins! One opening is for our Protein Characterization group led by Alyssa Anderson, and the other is for our Biochemistry group led by Edson Carcamo. These wet lab roles are a perfect for college students who are graduating this spring.

Quick reminder to join us at @danafarber.bsky.social tonight for an awesome talk by Jody Mou!

We're recruiting a Research Associate to join our Bioprocess Development team. This is a wet lab role ideally suited for someone graduating college this spring who is excited to join a team pioneering a new therapeutic modality Check it out! 👇 www.aiproteins.com/open-positio...

Spring is arriving in Boston and Jody Mou linkedin.com/in/jody-mou has some fresh new data to share! Wednesday, March 11th 2026, 7pm EDT in Room 6055, Longwood Center @danafarber.bsky.social "Computational Design of a Rapid and Orthogonal Self-Labeling Protein Tag for Live-Cell Imaging" bpdmc.org

I had a great time nerding out about protein design with @nickpolizzi.bsky.social, and an enormous thanks to @biotechtv.bsky.social and @massbio.bsky.social for hosting us! www.biotechtv.com/post/chris-b...

Enjoying a swing through New England. After a fun time at @bpdmc.org, Ethan Eschbach hosted me for a visit with @sandercbio.bsky.social and the @deboramarks.bsky.social lab. I was also thrilled to give a talk at the Thayer School of Engineering at Dartmouth hosted by T. Emme Burgin. What a fun week!

A huge thanks to everyone who packed the house at @mit.edu last night for a rockstar talk by @jeffreyjgray.bsky.social!

Quick reminder to join us at MIT tonight because Jeff Gray is speaking!