This was spearheaded by a wonderful postdoc in the lab Bryce Ackermann with a great supporting cast. I hope yall give it a read and we would be happy to take suggestions on where to send it (or if you are an editor and want it in your journal let me know). #biophysics #glycotime #proteinevolution

Does population size shape protein coevolution?
I explored this in my talk today at the MPI for Evolutionary Biology.
Our work in mammals suggests the answer is yes - genetic drift is a major determinant of compensatory mutations.

#evolution #genomics #proteinevolution @mpi-evolbio.bsky.social

Functional sub-states link conformational landscapes and protein evolution The intrinsic conformational flexibility of proteins creates structural heterogeneity, giving rise to conformational ensembles within the energy lands…

🔄 #Enzymes can adopt multiple #conformations.

⚡ Some of these act as functional sub-states.

📚 We summarised recent studies, the methods used to uncover these hidden states, and the challenges ahead in linking them to #proteinevolution.

www.sciencedirect.com/science/arti...

The role of metabolism in shaping enzyme structures over 400 million years - Nature By combining structural biology and evolutionary genomics analyses, the evolution of enzymes over 400 million years is shown to be governed by catalytic function, metabolic network architecture, cost ...

#Structuralbiology is integrated with evolutionary #genomics to analyse enzyme evolution over 400 million years & the role of #metabolism in #proteinevolution ➡️ www.nature.com/articles/s41...

https://doi.org/10.1126/science.ads0018 No description available

A language model, ESM3, simulates 500M years of evolution, generating functional proteins unprecedented in nature. #ProteinEvolution PMID:39818825, Science 2025, @ScienceMagazine https://doi.org/10.1126/science.ads0018 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪

Next up in the ProSE Seminar Series: Devlina Chakravarty (@devlinac.bsky.social) presents "Mutations Switch Folds in Proteins".
Join us to explore how mutations reshape protein structures!

April 8, 3PM GMT
Register here: tinyurl.com/prose-seminar3

#ProSESeminar #ProteinEvolution #StructuralBiology

Integrating protein language models and automatic biofoundry for enhanced protein evolution | Nature Communications Traditional protein engineering methods, such as directed evolution, while effective, are often slow and labor-intensive. Advances in machine learning and automated biofoundry present new opportunities for optimizing these processes. This study devises a protein language model-enabled automatic evolution platform, a closed-loop system for automated protein engineering within the Design-Build-Test-Learn cycle. The protein language model ESM-2 makes zero-shot prediction of 96 variants to initiate the cycle. The biofoundry constructs and evaluates these variants, and feeds the results back to a multi-layer perceptron to train a fitness predictor, which then makes prediction of second round of 96 variants with improved fitness. With the tRNA synthetase as a model enzyme, four-rounds of evolution carried out within 10 days lead to mutants with enzyme activity improved by up to 2.4-fold. Our system significantly enhances the speed and accuracy of protein evolution, driving faster advancement

Revolutionizing protein engineering: A closed-loop system uses ESM-2 for zero-shot prediction of 96 variants, enhancing automation and speed #ProteinEvolution PMID:39934638, Nat Commun 2025, @NatureComms https://doi.org/10.1038/s41467-025-56751-8 #Medsky 🧪

🚨 Unravel BILLIONS of years of protein evolution! 🚨

How did protein structures emerge and evolve over deep time?
Join @zachary-ardern in the next ProSE Seminar!

📅 March 11, 3PM GMT
🔗 tinyurl.com/prose-seminar2

#ProteinEvolution #StructuralBiology

Sign up for the ProSE Seminars on protein structure evolution. The full program includes talks on deep-time fold divergence, fold switches, and early protein evolution.
Next up: @zachary-ardern.bsky.social
📅 March 11, 3PM GMT
🔗 tinyurl.com/prose-seminar2

#ProteinEvolution #StructuralBiology 🧪

🧪 Join us today for the first ProSE Seminar on protein structure evolution!

Speaker: Andrei Lupas
🕒 3 PM GMT / 4PM CET
🔗 tinyurl.com/prose-seminar1

Don't miss out! #ProteinEvolution #ProSE

We continue our series of lecture recordings with 2024 Birnstiel Award laureate Luca Schulz, who traced #proteinevolution in #Rubisco, the carboxylase of #photosynthesis: youtu.be/xmuruTzl4D8

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𝗨𝗻𝗹𝗼𝗰𝗸𝗶𝗻𝗴 𝗘𝘃𝗼𝗹𝘂𝘁𝗶𝗼𝗻’𝘀 𝗕𝗹𝘂𝗲𝗽𝗿𝗶𝗻𝘁: 𝗣𝗿𝗼𝘁𝗲𝗶𝗻𝘀 𝗮𝘀 𝗖𝗼𝗺𝗽𝗹𝗲𝘅 𝗦𝘆𝘀𝘁𝗲𝗺𝘀

Read More: www.linkedin.com/feed/update/...

What’s one question you’d want to ask evolution if it were a scientist?
Dive deeper: lnkd.in/gGHvj2Sa

#ProteinEvolution #ComplexSystems #Biotechnology

New #joboffer!
We are looking for a #PhDStudent to join our closely collaborating groups at the Max Planck Institute for Biology (Department of #ProteinEvolution) and the University Hospital Tübingen (Division of Translational #Oncology – Department of Internal #Medicine II).

Wow, @HadeerElhabashy, what an opportunity!😃We wish Hadeer an excellent time at @lindaunobel! Learn about Hadeer and her passion for #proteinevolution here: https://youtu.be/Fws5HCuQNAU