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I promised to post again today with an update on in-house screening of my hit for fragment screening, but sadly, there’s nothing to update, as yesterday turned into a litany of disappointment (not to be too much of a drama queen!). First, I started a fresh purification of ACVR1 to prepare for setting up new Read More …
Gosh, it’s been a while since I posted – not because I have nothing to report, but because I’ve been super busy in the lab trying to get things done, as well as having loads of meetings and a symposium. So, in the meantime, I’ve done two purifications of ACVR1 and set up crystal plates, Read More …
The pH range used earlier was expanded for further optimization to check if the activity could improve. The dataset is posted on Zenodo.
The experimental set-up and results covered in this post can be found here: 10.5281/zenodo.1292884. A few posts back, I tried expressing HTT with different lengths of Q repeats in mammalian cells using baculovirus (read more here). However, expression was not very good, especially for HTT with longer Q repeats (have a look at these results here). Read More …
I don’t just want to check whether the compounds I’m testing kill DIPG cells, I want to check that they’re doing this by altering BMP signalling too. However, I can’t do this with the DIPG cells, because if a compound does work, and kill them, there’ll be no cell left to actually measure the amount Read More …
Hello Open World! In this very first post I will give an overview of my current and future research on malaria. I would like to sincerely thank everyone here (particularly Matthieu and Mandeep) for welcoming me so warmly. ABSTRACT: A major challenge for the elimination of malaria is Plasmodium falciparum asymptomatic infections, the hidden infectious Read More …
Purification of proteins for a pull down experiment between XIAP and various type I and type II receptors. XIAP is known to bind to the kinase RIPK2. RIPK2 is one of the few kinase proteins that shows overlap of reactivity to some of the compounds that we’ve been looking at in the context of ALK2 Read More …
To understand what proteins do, scientists often test the consequence their absence has on a cell. A common method uses a cells regulatory machinery to disrupt gene expression with complementary RNA molecules, known as RNA interference. Here I used small interfering RNAs (siRNAs) to deplete NSD3 and test the effect this has on epithelial cell identity in Read More …
In my last post, I developed a low-throughput 19F NMR screening assay against USP5 Zf-UBD, where ligand binding of a ubiquitin peptide was detected by perturbations in the resonance of a fluorinated tryptophan at the binding pocket. I recently screened the first batch of compounds that Ivan Franzoni and Renato Freitas, post-docs at the University Read More …
With previously optimized conditions, the linearity range for HDAC11 was obtained and the Km for the substrate was calculated. The data is posted on Zenodo.
