Discover and read the best of Twitter Threads about #glycotime
Most recents (6)
🚨Happy to share our newest labor of (nerd) love
🤓❤️
In situ dynamics of influenza glycoproteins illuminate their vulnerabilities
w/ @kanekiyom @LCasalino88 @chem_christian, J Lederhofer, Y Tsybovsky, I Wilson
#glycotime #compchem
biorxiv.org/content/10.110…
🧵:
🤓❤️
In situ dynamics of influenza glycoproteins illuminate their vulnerabilities
w/ @kanekiyom @LCasalino88 @chem_christian, J Lederhofer, Y Tsybovsky, I Wilson
#glycotime #compchem
biorxiv.org/content/10.110…
🧵:
We characterize dynamics of flu glycoproteins in a crowded protein environment via mesoscale (120 nm diameter, 160 million atom) molecular dynamics simulations of 2 evolutionary-linked glycosylated influenza A whole-virion models 
Our simulations indicate that the interactions of proteins & glycans in the crowded viral surface facilitate 3 major glycoprotein motions, each of which reveals antigenically relevant states
First, we see an extensive tilting of the neuraminidase (NA) head...
First, we see an extensive tilting of the neuraminidase (NA) head...
Our paper is out!
Optimized Glycopeptide Enrichment Method–It Is All about the Sauce pubs.acs.org/doi/10.1021/ac…
#glycotime #TeamMassSpec #proteomics
A personal note (and couple of comments about publishing methods): \start
Optimized Glycopeptide Enrichment Method–It Is All about the Sauce pubs.acs.org/doi/10.1021/ac…
#glycotime #TeamMassSpec #proteomics
A personal note (and couple of comments about publishing methods): \start
I really like this project, mainly because what it represents for me. I'm a scientist at a proteomics service facility led by @YishaiLevin. We're a bunch of talented scientists (if I might say so..), and our job,
in my opinion, is to enable excellent science through excellent proteomics. Enabling science is not only performing the experiments, but also making sure our capabilities are top-notch. This means investing in R&D of methods, and this is how this project was born:
We made the cover! Presenting the #photosystem of Gemmatimonas phototrophica, a funky little bacterial alga (the first discovered example of its genus) found in the Gobi desert a little under a decade ago. This one's been quite the journey, so buckle in. (1/)
What I'd mostly like to talk about is the saga of how this model came to be... but first, a little about what makes it special. At first glance, it's fairly similar to other bacterial photosystems: a central reaction complex (RC) surrounded by a light-harvesting (LH) ring. (2/)
What's brand new here is the way it increases its light-harvesting capacity. All other known photosynthetic bacteria have a single LH ring around the RC (termed LH1), and then make smaller "satellite" rings (LH2) which hang around the edges. (3/)
We ring in #2022 by introducing a new member of the mucin (MUC) family. Say hello to MUC3B that now joins 3 annotated membrane mucin genes in human chr 7q22! biorxiv.org/content/10.110… 🧵👇#mucins #glycotime
1/6: GRCh38 human genome assembly contains 3 membrane mucin genes (MUC3, MUC12 and MUC17) in chr 7q22. This “MUC3 cluster” is flanked by 3 genes ACHE, TRIM56 and SERPINE1.
2/6: We used ACHE, TRIM56 and SERPINE1 as genetic landmarks to search primate genomes for conserved MUC3 clusters. To our surprise all primates carry 4 MUC genes sandwiched between landmark genes, including a MUC3B gene that we could not find in human GRCh38!
Taking chemical reaction prediction models one step further in a great collaboration with Giorgio (@Giorgio_P_), a brilliant organic chemist!
A thread ⬇️1/N
A thread ⬇️1/N
A major limitation of current deep learning reaction prediction models is stereochemistry. It is not taken into account by graph-neural networks and a weakness of text-based prediction models, like the Molecular Transformer (doi.org/10.1021/acscen…).
How can we improve? 2/N
How can we improve? 2/N
In this work, we take carbohydrate reactions as an example. Compared to the reactions in patents (avg. 0.4 stereocentres in product), carbohydrate contain multiple stereocentres (avg. >6 in our test set), which make reactivity predictions challenging even for human experts. 3/N
Proud to share our latest publication which shows how to synthesize a library of #glycopeptides at microgram scale in a parallel and cost effective manner published in @CellChemBiol
cell.com/cell-chemical-…
Collaboration between @theNCFG @NPohl_Group & @BoyceLab
#glycotime
cell.com/cell-chemical-…
Collaboration between @theNCFG @NPohl_Group & @BoyceLab
#glycotime
The method is based on SPOT synthesis technique (classically used to produce non-glycosylated peptides), which we modified to help with special conditions required for glycoamino acids (which are more fragile). We also developed a biopsy sampling technique to monitor reactions.
Synthesis can be done without need for specialized equipment, in a chemical fume-hood with filter paper/cellulose (solid support), a glass food lock-lock type container and chemical reagents used in traditional FMOC peptide chemistry and other common lab equipment e.g. pipettes.
