A protein regulates its RNA. As nascent tubulin polypeptides emerge from the ribosome exit tunnel, they are recognized by TTC5, which ultimately leads to RNA degradation. How common is this mechanism ? How many proteins regulate their transcripts ?

The DDX3X-DDX3Y example is particularly interesting as it illustrates balancing the abundance of homologous proteins. x.com/slavovLab/stat…

What a week. Biology is crazy. Toxic gene creation: doi.org/10.1126/scienc… Discovery of Obelisks: biorxiv.org/content/10.110… Fanzor mechanisms: doi.org/10.1016/j.cell…

From Zero vinyl and more available for pre-order now at LinkinPark.com.

Disordered regions of human eIF4B orchestrate a dynamic self-association landscape: nature.com/articles/s4146…

Without taking any credit away from Hassabis, Jumper and Baker, someone who did not receive deserved credit by the Nobel is Jinbo Xu. He is the first to develop the deep learning algorithm that essentially was reimplemented/enhanced in the original AlphaFold. He should have won

Sören, Giulio & I wrote a short review on the use of machine learning methods to study disordered proteins, with a focus on linking sequences to ensembles (by simulation or generative models; or for design), biophysical properties and biological functions doi.org/10.48550/arXiv…

The ability to model both folded domains and disordered regions in condensates means that we can now begin to use CALVADOS simulations to ask how and why the condensate environment changes folding stability

pubs.acs.org/doi/full/10.10… Very chuffed to see this out in JCIM & JCTC Journals!! CGFF of full length FUS, hnRNPA1, TDP-43, G3BP1, TIA-1, Poly UBQ, HIV GAG and more. Wonderful experience working with KrishnaKanth B . Thanks Kresten Lindorff-Larsen Mittal Group @TAMU Debayan Chakraborty for discussions.

A machine learning system that simulates proteins with more than 10,000 atoms with quantum accuracy. nature.com/articles/s4158…

Why are so many proteins hyper-phosphorylated during mitosis? Well, phosphorylation renders individual proteins more soluble & disrupts protein-protein interactions. So global hyper-phosphorylation may 𝐟𝐥𝐮𝐢𝐝𝐢𝐳𝐞 the cytoplasm - to mechanically aide cell division.

CALVADOS-RNA

Our review on machine learning methods to study sequence–ensemble–function relationships in disordered proteins

Timescales in Cell Biology

DrNadaSalma⚕ source: scribd.com/document/76905…

Cursor is now free for students. Enjoy!

Two recent preprints from a great collaboration with Rasmus Hartmann-Petersen's lab on mapping degrons in (1) 5,000 human cytosolic proteins and (2) 1,600 human transcription factors 1: doi.org/10.1101/2025.0… 2: doi.org/10.1101/2025.0…

Transcriptional over-expression of genes coding for ribosomal proteins does not elevate protein levels. Protein levels remain stable because the excess subunits are degraded. Inhibition of the proteasome leads to the accumulation of insoluble aggregates.

More than 2700 3′UTRs are highly conserved. These 3′UTRs are essential components in mRNA templates, as their deletion decreases protein activity without changing protein abundance. Highly conserved 3′UTRs help the folding of proteins with long IDRs. biorxiv.org/content/10.110…