@_JimHorne

Postdoc in the Luisi group at Cambridge Biochem working on the structural biology and biochemistry of bacterial efflux pumps.

 Cambridge, England
Joined April 2015
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New paper from @SujeetKumar_LSU and co, finally finding the OM clamp for one of the non-TamB AsmA-like proteins! If we could just do all vs. all cell envelope proteins in AF2 I wonder what else we would discover pnas.org/doi/full/10.1073/pn…
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This is insanely cool. Rendering protein/cell scenes and tomograms using Unreal Engine 5 so you can display more with less GPU overheads and control a character to fly through them! biorxiv.org/content/10.1101/…

Rendering protein structures inside cells at the atomic level with Unreal Engine

While the recent development of cryogenic electron tomography (CryoET) makes it possible to identify various macromolecules inside cells and determine their structure at near-atomic resolution, it...

biorxiv.org
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More than proud to see our work on SlyB out in press @Nature! Who would have thought a small membrane protein could form protective nanodiscs. A big thank you to all collaborators and reviewers. Find out more: nature.com/articles/s41586-0…
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Glad to see this paper from Sam finally out with tons of very cool in vivo fluorescent labelling tricks!
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We're excited to share new tools, using photo-crosslinking mass spec 💡⚔️⚖️ to study protein structures and complexes in situ with high spatial and temporal resolution. Out now in @AmerChemSociety @an_chem. Short 🧵 1/8 pubs.acs.org/doi/10.1021/acs…

Progress toward Proteome-Wide Photo-Cross-Linking to Enable Residue-Level Visualization of Protein...

Abstract. Cross-linking mass spectrometry (XL-MS) is emerging as a method at the crossroads of structural and cellular biology, uniquely capable of identif

pubs.acs.org
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Our new paper published in @jbiolchem. Categorization of Escherichia coli Outer Membrane Proteins by Dependence on Accessory Proteins of the β-barrel Assembly Machinery Complex jbc.org/article/S0021-9258%2…

Categorization of Escherichia coli outer membrane proteins by dependence on accessory proteins of...

The outer membrane (OM) of gram-negative bacteria is populated by various outer membrane proteins (OMPs) that fold into a unique β-barrel transmembrane domain. Most OMPs are assembled into the OM by...

jbc.org
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In our just accepted paper in @angew_chem with @RadfordLab & @naranson in @AstburyCentre we used In-Cell PELDOR/DEER complemented by CryoEM to show the BAM complex adopts a lateral closed conformation in E coli cells in presence of antibiotic darobactin-B: onlinelibrary.wiley.com/doi/…
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I keep going on about it, but it just works so ludicrously well. If you have control over the generation of your secondary structure cartoons, you can do sneaky little reveals like this one 🙈🙉 #MolecularNodes #GeometryNodes #Blender3d
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Today we're making RF Diffusion, our guided diffusion model for protein design with potential applications in medicine, vaccines & advanced materials, free to use. The software has proven much faster and more capable than prior protein design tools. bakerlab.org/2023/03/30/rf-d…
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We’ve got a new preprint addressing a basic question: how much does it cost a bacterium to constantly fire a T6SS? We’ve always assumed it’s expensive, as it’s huge (the width of a cell!), ballistic, and tightly regulated. 1/18 biorxiv.org/content/10.1101/…
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Wow this is some incredible structural biology and an amazing explainer video
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📰Check out our latest work from @LabSkiniotis on "Time-resolved cryo-EM of G protein activation by a GPCR" that is now on @biorxivpreprint!👀 #GPCR #cryoEM [a thread w/ videos below] (1/6) biorxiv.org/content/10.1101/…

Time-resolved cryo-EM of G protein activation by a GPCR

G protein-coupled receptors (GPCRs) activate heterotrimeric G proteins by stimulating the exchange of guanine nucleotide in the Gα subunit. To visualize this mechanism, we developed a time-resolved...

biorxiv.org
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We and the @rbolab are excited to present AlphaLink nature.com/articles/s41587-0… a modified version of the AlphaFold2 protein structure prediction algorithm that can directly incorporate experimental residue-residue contact data from crosslinking MS (and potentially other techniques)!
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This is so cool, I've been waiting to see someone do this! Going to be great for annotating genomes
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Farewell to single-well #smFRET. Our newest story on bioRxiv biorxiv.org/content/10.1101/… Great team work led by @HartmannPHY with @KoushikS33, Mathias, @nehagc18, Philipp and @GeorgKrainer. Brief tweetorial and open access software 1/5
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It's all connected! How many years I wonder until we discover that everything in the bacterial cell envelope is connected in some kind of mega Envelopome structure.
Nature Microbiology@NatureMicrobiol1 Mar 2023
OUT NOW @Nature 👀Coordination of bacterial cell wall and outer membrane biosynthesis nature.com/articles/s41586-0…

Coordination of bacterial cell wall and outer membrane biosynthesis

Nature - A study demonstrates that specific interactions between the two committed enzymes for the synthesis of lipopolysaccharide and peptidoglycan enable coordinated assembly of the outer...

nature.com
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This is awesome!
Oleg Sitsel@oleg_sitsel24 Feb 2023
Replying to @oleg_sitsel
3/3 Read the full preprint at doi.org/10.1101/2023.02.22.5…
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Great tree-of-life-wide OMP bioinformatics paper and tools from @SluskyLab. The kind of work I've always thought would be really cool to do on today's huge genome databases! biorxiv.org/content/10.1101/…
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Check out our Cell Preview summary of @DoyleMT1 @hbernstein16 's fantastic paper out now in @CellCellPress and learn about why these are super cool structures you should pay attention to! cell.com/cell/fulltext/S0092…

Roll out the barrel! Outer membrane tension resolves an unexpected folding intermediate

How do bacteria assemble transmembrane β-barrels into their outer membrane in the absence of an energy source? New structures and experiments from Doyle et al. suggest that the β-barrel assembly...

cell.com
Dr Matthew Doyle@DoyleMT115 Mar 2022
**ONLINE NOW!** @hbernstein16 and I are delighted that our paper using Cryo-EM and in vivo assays to understand outer membrane protein folding has found a home at Cell! @CellCellPress Here is a free access link to the article: authors.elsevier.com/c/1el7U… 1/3 cell.com/cell/fulltext/S0092…
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