While the speed-ups are unimpressive, the idea of charting a range of algorithms by deep learning is interesting nature.com/articles/s4158…

please RT: we are looking for a postdoc experience with protein purification, protein kinases and/or structural biology up to 3 years funded fellowship to work on a project dealing with isoform specific allosteric inhibition. contact me for more details. #postdocjobs

Happy to see this work out on bioRxiv today! It was (and still is!) a great collaboration between our group Biozentrum, University of Basel SIB (Janani Durairaj (Jay) , Torsten Schwede , SWISS-MODEL ), Vasili Hauryliuk , Tanel Tenson, and Alex Bateman, Antonina Andreeva and the The Pfam database team.

Munich Institute of Biomedical Engineering Helmholtz Munich | @HelmholtzMunich MPI for Biological Intelligence ZEISS Group MPI for Multidisciplinary Sciences MPI for Neurobiology of Behavior – caesar Helmholtz AI @westmeyerlab Felix Sigmund New gene reporter system for electron microscopy: Scientists have developed a barcode system that allows identifying cellular states and structures that would otherwise remain unrecognized #NBTintheNews via Munich Institute of Biomedical Engineering bioengineering.tum.de/en/news/detail…

#joboffer #SelimLab. has an open PostDoc. position (100%; available immediately) with strong focus on structural biology #CryoEM Plz apply if you wanna join an international team Universität Freiburg @sfb1381 Faculty of Biology - University of Freiburg Please RT and Spread the words #PII #Signaling #protein #ScienceJobs

I’m looking for a postdoc who would like to work primarily in the wet lab while also learning a bit of computational protein design. Lots of exciting projects! Please reach out if interested!

Here is our new protein design engine. In short, it evaluates interaction energies through a single matrix operation! We're happy to get your feedback on the early software (bio.mpg.de/damietta) or web-server (damietta.de); high-performance releases to follow.

The link for the atlas: uniprot3d.org/atlas/

Our preprint on tuning of G-CSFR signalling. Many thanks to PiehlerLab for the great collaboration! biorxiv.org/content/10.110…

We just released the "protein design toolkit", integrating tools from Damietta, ProteinMPNN and OpenMM. An interactive tutorial is available at the server damietta.de. Recommended usage is described in the paper: doi.org/10.1093/nar/gk… and feedback is most welcome!

The upgraded rotamer library (v1.60->v1.95): - Glycine padding; Ac-GLY-X-GLY-NHMe instead of Ac-X-NHMe - Higher temperature; 310 K instead of 293 K - Simulated using CHARMM36 instead of CHARMM27

We have up to three HiWi (1 year contract) and/or Master's thesis projects in Tuebingen on topics of: i) deimmunization of synthetic cytokines, ii) Optimization of metal-binding proteins, or iii) Characterization of cell-penetrating peptides. Please, get in touch if interested.

📢The future Pereira lab is hiring! We will start at VIB.AI in February 2025 and are looking for a postdoc to join and kick-start our team 🤓 If you want to leverage AI and large networks to explore and understand the protein universe 🌌, check below! jobs.vib.be/j/93314/postdo…

By designing bivalent binders that lock a cytokine receptor into a non-signaling assembly, Timo has managed to create the most potent (and most stable) G-CSFR antagonists to date! For details: doi.org/10.1371/journa…

We have an available PhD project in our group as part of this round of the IMPRS: phd.tuebingen.mpg.de/14722/phdproje…

Blocking cytokine signaling can be an effective therapy for a range of different diseases. Mohammad ElGamacy &co use computational protein design to develop novel #cytokine receptor antagonists, showing G-CSFR inhibition in a cell model of AML #PLOSBiology plos.io/41ePP0G

D-amino acids are now available in all design and MD protocols, on standalone and server software. The table of valid input 3-letter codes: damietta.de/manual/#aa_cod…

Our paper on the Protein Design Archive has just been published in Nature Biotechnology! It describes our web application for exploring designed proteins (link ⬇️) and contains analysis of how they have changed over time. Marta Chronowska Michael Stam WoolfsonLab nature.com/articles/s4158…

The HECTOR method is now out, where starting from maximal steric complementarity could achieve high-affinity binders, with experimental validation against VEGF and IL-7Ra as targets. paper: doi.org/10.1002/advs.2… code: doi.org/10.24433/CO.92…

By manipulating the receptors association geometry, we managed to induce biased, and more selective, signaling along the G-CSF axis. paper: doi.org/10.1016/j.ymth…