We made FLIP2, a protein fitness benchmark spanning seven new datasets, including enzymes, protein-protein interactions, and light-sensitive proteins, as well as splits that measure generalization relevant to real-world protein engineering campaigns.
This is why I canβt stand LinkedIn.
Great initiative, I hate checking twitter but still seems to feed more interesting papersβ¦
Crystal structure of malaria parasite fusogen PfHAP2 domain 3 and nanobodies - unsolved mysteries galore! π¦π¦π
PfHAP2 is part of family of ancient fusogens involved in fertilisation processes in algae, plants to malaria parasites.
Check out the first crystal structure of PfHAP2 D3 and nanobodies
Beginning 2026 with a flipping good paperπ OSCA/TMEM63 proteins do double duty: theyβre ion channels and mechanically activated lipid scramblases helping reshape membranes and survive mechanical stress. π @yiechanglin.bsky.social @charlesdcox.bsky.social doi.org/10.1038/s414...
Pfs48/45 nanobodies block malaria parasite transmission π¦ and crystal structures provide structural insight to how they bind π
Pfs48/45 is one of the leading transmission blocking vaccine candidates and a critical fertilisation antigen π
Please share widely- love to hear your feedback!
π§΅1/3 I created this free 37-hour course, distributed across 10 lectures, to introduce AI-based protein design. For more information about the course and its specific topics, please visit the official course page:
New Preprint!! We show that binding entropy can be quantitatively predicted from crystallographic ensemble models, accounting for both protein conformational entropy and solvent entropy! www.biorxiv.org/content/10.6...
Project started by Jack and led by Sacha
Protein design still mostly targets single compact domains; but bio builds function by recombining domains into larger multi domain proteins. Understanding the evolutionary rules of domain assembly will be important if we want to design the level of functionality seen in many native proteins
www.biorxiv.org/content/10.6... most proteins are multi domain but our understanding of how architectures evolve is limited - we mapped 40K chitinases and show a stepwise βgrammarβ of domain gain/loss and localisation changes that predicts ecological strategy and physiological function.
I'm really excited to break up the holiday relaxation time with a new preprint that benchmarks AlphaFold3 (AF3)/βco-foldingβ methods with 2 new stringent performance tests.
Thread below - but first some links:
A longer take:
fraserlab.com/2025/12/29/k...
Preprint:
www.biorxiv.org/content/10.6...
My uni and many others have tried to centralize and automate many administrative functions. What happens is that the expertise is moved out of the department and then the rest of us suckers are left to learn to become admins and deal with all the edge cases. Such has been the last 6 yrs of my life
Keen to use an open source workflow for nanobody discovery? Check out Alpseq π¦
Alpseqβs diversity analysis, enrichment counts & clustering allow different approaches for nanobody selection
Great collab with bioinformaticians @qgouil.bsky.social Kathleen Zeglinski
www.biorxiv.org/content/10.1...
Pigeon fortress
Pomfret Vermont
πΈ Ngoc Minh
At the age of just six years old, H.M. Saffer II exhibited his art at a public show, launching his career into a creative world where he continues to thrive. Following his graduation from Temple University in Pennsylvania, he moved to Paris, France, to study economics. Concurrently, he honed his musical talents performing with renowned French stars Hugues Avery, Jacques Brell, Charles Aznavour, and others. While in Paris, he was chef and owner of two restaurants, and later a third in Madrid. Throughout all of these endeavors, Saffer never stopped painting, and exhibited in Paris as well as Brussels, Belgium. His career as a musician continued as he worked with Warner Brothers, creating music while exhibiting his works in the company's lobby. Following his time there, Saffer went on to work for the Crewe Group, then created his own company, HMS Two Music LTD, creating for global brands such as Pepsi, Mountain Dew, Ford Motor Company, and Michelob, among others. As the years passed, Saffer's art was progressed and refined, while broadening in scope. Beginning in 1981, he studied with the Japanese masters of the traditional brush painting technique, sumi-e, meeting his wife there in 1983. He was represented by Galerie Musee and the Artbridge Gallery in Japan, and by Alisen Gallery and the Kwai Fung Hin Gallery in Hong Kong. Here, he exhibited as a resident and solo artist. After relocating again to upstate New York, Saffer explored methods combining his Eastern and Western artistic influences, creating a unique style on his journey towards interpersonal visual expression. Saffer has instructed at the Norman Rockwell Museum in Stockbridge, Massachusetts, Berkshire Community College, and Columbia-Greene Community College. He currently has gallery representation both in the United States and internationally.
H.M. Saffer II (American, b.1942) :
Moon Waters, 2023
Oil on canvas
30 Γ 30 in | 76.2 Γ 76.2 cm
Further description & bio in the alt text π
βProtein evolution as a complex systemβ β A new Comment discusses protein evolution in terms of complex systems theory and machine learning approaches to model the dynamics of protein evolution
www.nature.com/articles/s41...
Thank you everyone for the congratulations and the large number of applications! I want to specifically encourage applications for these positions:
* Postdoc in structural biology (cryoEM, ideally with X-ray too)
* Full time lab manager/technician with wetlab experience
Protein-ligand complexes are all the rage with OpenBind+other efforts launching
3 amazing papers describing 229 protein-ligand structures just dropped in @actacrystd.iucr.org
A tremendous teaching text, but I disagree on the discussed potential for misuse. Read more
fraserlab.com/2025/07/29/E...
Very excited about our latest all-atom generative model proteina, check out the project page (research.nvidia.com/labs/genair/...) and stay tuned for the code release soon!
nothing would make me happier than US science returning to the amazing and transformational legacy of success and dominance
but if that's not possible, we need other places with the vision to take over as the pacesetter
humanity's long term success demands no less
Pleased to announce I have been promoted to the rank of GRANDMASTER thank you for your attention to this matter
Proud to share our work where we resolved a longstanding question regarding the existence of a human telomerase dimer and provided insights into its function. Led by 3 amazing lab members in collaboration with @yiliangding.bsky.social and @rdaslab.bsky.social.
www.science.org/doi/10.1126/...
This paper started probably 20 years ago when I was working with John Oakeshott, a long time in the making and I think a nice summary of a complex real world evolutionary process
Seriously.
Pay for review, not publication
Publish public reviews
Editorial assessment changes until version of record
Flexible article types elife-rp.msubmit.net/html/elife-r...
Some work todo on reviewer credit (add @prereview.bsky.social to you cv!)
New tools! GreenPy and ApplePy are fluorescent biosensors for pyruvate with huge responses (20β40x in vitro) and a range of affinities (10s of ΞΌM to mM). These should be game changers for imaging of metabolism! Great work by Shosei Imai @sikmys.bsky.social and team π. www.biorxiv.org/content/10.1...
