Toth-Petroczy lab

New Perspectives on the Hidden World of Proteins  Schering Young Investigator Award 2025 goes to Agnes Toth-Petroczy

Schering Young Investigator Award 2025 by the Schering Stiftung for Agnes Toth-Petroczy @tothpetroczylab.bsky.social @mpi-cbg.de @csbdresden.bsky.social. She receives the award for her work on the evolution, diversity, and function of proteins. Congratulations! 🎉 www.mpi-cbg.de/news-outreac...

AI can now generate fake microscopy images that are nearly impossible to detect. A serious threat to scientific integrity—and we’re not prepared for it.

Commentary in @natnano.nature.com

#nanotechnology

🧬 We're excited to host the 13th Symposium on Structural #Proteomics at HT in Milan on 6–8 Oct 25! Join this international meeting with talks on protein structure and interactions by crosslinking MS, HDX-MS, native MS, chemoproteomics & more 👉 ssp2025.squarespace.com
▶️ @ssp2025.bsky.social

Novel Research in Biological Artificial Intelligence Expressions of interest and nominations for a Max Planck Director to lead research in the field of Biological Artificial Intelligence.

Novel Research in Biological Artificial Intelligence: Expressions of interest and nominations for a Max Planck Director to lead research in the field of Biological Artificial Intelligence @mpi-cbg.de and @csbdresden.bsky.social. More information: www.mpi-cbg.de/news-outreac...

How we’re rebuilding the Weizmann Institute — and our hopes for a better future Scientific research is at the heart of Israel’s success and has worldwide benefits. Our work will continue despite adversity.

Scientific research is at the heart of Israel’s success and has worldwide benefits. Our work will continue despite adversity, says Alon Chen

https://go.nature.com/40wXMx6

Big news 🎉 We are excited to announce the new TUD graduate school "Biomolecular Condensates: From Physics to Biological Functions", with 12 members from PoL! Through this school, we will train a new generation of scientists working on #condensates at the interphase between theory and experiments 🤓⤵️

The latest release was supported by the #condesathon joined by @mpi-cbg.de condensate community🤩

Big #thankyou to all the participants from
@hymanlab.bsky.social, @tothpetroczylab.bsky.social and von Appen labs for your support and enthusiasm!💜

YouTube video by MPI-CBG Condensates Inside Condensates—Triggering Disease?

Related science sketch video by @marionamec.bsky.social www.youtube.com/watch?v=0REv...

Congratulations to the amazing team of Chi Fung Willis Chow, @mscheremetjew.bsky.social, Soumyadeep Ghosh, @annaha-poetry-art.bsky.social and HongKee and Lena from the Scientific Computing Facility @mpi-cbg.de! 🎉

SHARK: web server for alignment-free homology assessment for intrinsically disordered and unalignable protein regions Abstract. Whereas alignment has been fundamental to sequence-based assessments of protein homology, it is ineffective for intrinsically disordered regions

Are you looking for homologous sequences but alignments do not seem to work? SHARK is available as a webserver: compare sequences or search against precomputed IDR datasets: bio-shark.org @narjournal.bsky.social @mpi-cbg.de @csbdresden.bsky.social @poldresden.bsky.social
doi.org/10.1093/nar/...

One week left to apply to the Physics of Life MSc this year! Students learn first-class research skills and can also avail of #scholarships to aid their studies.

Learn more and apply: physics-of-life.tu-dresden.de/career-educa...

#internationalstudents #MSc #EnglishMSc #Physics #studyabroad

Exciting that CD-CODE is now connected to THE go-to resource for everything protein-related!

It's a great step forward, directing further developments and outlook for our project @tothpetroczylab.bsky.social @mscheremetjew.bsky.social 🥳

We conclude that new IDR-specific features and paradigms are needed to accurately classify disease mutations within those regions. Disorder-to-order transitions predicted by AlphaFold3 and motif predictions (e.g. by SHARK-capture) may aid structure-based variant interpretation.

The distance to the second Methionine discriminates between pathogenic and benign variants associated with the N-Methionine site.

Mutations at the N-Methionine site are prevalent. Look at the surprisingly high peak at position 1.

Most mutations in disordered regions are benign but ~12% of pathogenic mutations fall within a disordered region.

The correlation between the disorder predictors is low.

It depends which disorder definition (score) is used. Only 7% of residues are consistently predicted as disordered across five different disorder prediction tools. flDPnn under predicts disorder compared to other methods.

State-of-the-art VEPs tools have lower sensitivity but higher specificity for variants in disordered regions.

Deep learning tools predict variants in disordered regions with lower sensitivity - BMC Genomics Background The recent AI breakthrough of AlphaFold2 has revolutionized 3D protein structural modeling, proving crucial for protein design and variant effects prediction. However, intrinsically disorde...

Deep learning tools predict variants in disordered regions with lower sensitivity. Just published by FedericaLuppino, @swlenz.bsky.social and WillisChow @mpi-cbg.de @csbdresden.bsky.social @poldresden.bsky.social bmcgenomics.biomedcentral.com/articles/10....

New Publication of the @tothpetroczylab.bsky.social: The group found that prediction tools are less sensitive in intrinsically disordered regions of proteins (IDRs). Since they are common & important, new methods tailored to these regions are needed. bmcgenomics.biomedcentral.com/articles/10....

logo with a shark

The @tothpetroczylab.bsky.social together with the @albertilab-tud.bsky.social developed SHARK-capture to detect recurring patterns (motifs) in intrinsically disordered protein regions (IDRs). Publication in Protein Science. www.mpi-cbg.de/news-outreac...

PDB101: Irina Bezsonova Gallery PDB-101: Training, Outreach, and Education portal of RCSB PDB

You can download my protein structure-inspired artwork from pdb webpage:

pdb101.rcsb.org/sci-art/bezs...

@rcsbpdb.bsky.social
@pdbeurope.bsky.social
#sciart

Proteome-wide predictions of motifs in S. cerevisiae are available. Matches to ELM motifs, UniProt motifs, and mutagenesis sites (UniProt) are enriched in SHARK-motifs compared to the random control. An example output: SHARK-capture score plot for Sic1.

SHARK-capture identifies a highly conserved motif (in pink) amongst Ded1p orthologs which regulates ATPase activity. Interestingly, AlphaFold2 predicts close proximity between the motif and the helices core.

SHARK-capture is available as a Python package (pypi.org/project/bio-...) and on git (git.mpi-cbg.de/tothpetroczy...) where we provide bash scripts for parallelization on HPC and a colab notebook colab.research.google.com/drive/1l_hNY...

SHARK‐capture identifies functional motifs in intrinsically disordered protein regions Increasing insights into how sequence motifs in intrinsically disordered regions (IDRs) provide functions underscore the need for systematic motif detection. Contrary to structured regions where moti...

Identifying functional motifs in disordered regions is challenging. We gave it a try. Check out SHARK-capture, an alignment-free method to detect SLiMs. Congrats Chi Fung Willis Chow @swlenz.bsky.social et al. @mpi-cbg.de @csbdresden.bsky.social @poldresden.bsky.social doi.org/10.1002/pro....

a group of ducklings are running in a field . ALT: a group of ducklings are running in a field .

🍃CD-CODE update v1.09 is here!🍃

👀Check out the new #biomolecular #condensates at cd-code.org
👀We're continuing to update #Protein - #condensate connections and resolve issues!

Join us to share your #condensate #expertise as a contributor: cd-code.org/signup

#Bioinformatics #DatabaseUpdate #IDR

Programmable viscoelastic hydrogels uncover mechano-sensing timescales and direct cell polarity https://www.biorxiv.org/content/10.1101/2025.02.09.637331v1

Anthony Hyman: "...the realization of phase separation as a critical organizing principle in cellular biology has transformed the field." From a 1920s book to nanoscopy – Anthony Hyman, who will deliver the EMBO Lecture at the 49th FEBS Congress in Istanbul in July 2025, shares some of his inspirations and interests.

MPI-CBG director Anthony Hyman @hymanlab.bsky.social will deliver the EMBO Lecture at the 49th FEBS Congress in Istanbul in July 2025. Read an interview with him, where he shares some of his inspirations and interests. network.febs.org/posts/anthon...