I'll refer to a review from @sazanovlab.bsky.social "The more detergent, the higher the protein concentration required to reach the desired coverage." Also, the AWI acts as a concentrating layer, somewhat masking the true particle distribution in detergent free sample. doi.org/10.1016/j.is...
Thanks @brettcollins.bsky.social For TTR (55 kDa), cFAR did substantially improve, but views were still not fully randomized. I would still take the DM over making graphene grids.
And check out SurfACT too. Congrats! doi.org/10.64898/202...
Blender Rendering of vitrified HA trimer with DM at the air-water interface
We identified the maltoside detergent DM as an effective and easy solution to address preferred orientation in cryo-EM. Helped me switch from graphene grids. Special congrats to Maria Rafiq! @landerlab.bsky.social @nanigrotjahn.bsky.social @wisemanlab.bsky.social #cryoEM doi.org/10.64898/202...
We're excited to announce the beta-release of #RELION-5.1! 🥳 This release has important updates on our #amyloid processing pipeline, as described in this preprint: doi.org/10.64898/202... There are also some tweaks for #teamtomo.
#OpenSoftwareAcceleratesScience
ABC transporter Pgp in membrane. Blender Rendering
Great to see one of my PhD projects out on bioRxiv. We report "A dual sensor regulates P-glycoproteins structural plasticity." Congrats to Michael Kamel for doing the heavy lifting from
@arnemoeller.bsky.social
& Urbatsch Lab. doi.org/10.64898/202... #b3d #cryoEM
Pacometer vs. speedometer
For obvious reasons, we need a Paceometer! #endroadrage doi.org/10.1017/S193...
Figure 1. Cryo-EM of abundant protein complexes in native membranes.
Figure 2. Cryo-EM of membrane proteins in vesicles.
Figure 3. 3D reconstruction of V-ATPase in native synaptic vesicle membranes.
Figure 4. Generation of membrane vesicles for structure determination of proteins in their native lipid bilayer.
I've written a review on what I think is an extremely exciting direction in cryo-EM:
Cryo-EM of endogenous membrane proteins in their native lipid bilayer
Open access in Quarterly Reviews of Biophysics:
doi.org/10.1017/S003...
ChimeraX screenshot showing CubeNTube plugin.
The new ChimeraX CubeNTube plugin allows erasing parts of maps using cube, cylinder, and custom shapes and has undo. Created by Tamino Cairoli. Available from ChimeraX menu Tools / More Tools....
Since last year, I've been making a RELION GUI that supports viewing, navigating and running jobs in a way completely compatible with the original RELION pipeline. Now it's working nicely for both SPA and tomography! Please try it out - github.com/hanjinliu/hi...
Thanks @olibclarke.bsky.social - still too fresh, maybe the bioRxiv link works better? www.biorxiv.org/content/10.6...
ATTR amyloid render from Blender
Microangiopathy in ATTR Cardiac Amyloidosis. Proteomics shows thrombo-inflammation; cleared tissue reveals capillary rarefaction; cryo-EM resolves spearhead fibrils decorated with collagen VI. New preprint from the Kelly, Ye & @landerlab.bsky.social @scripps.edu doi.org/10.64898/202...
Second that. Cryo-EM is still microscopy, so please include micrographs with visible particles.
Thanks, I guess we all needed this.
Blender rendering of TLR4 in membrane and TIRAP fibrils at the plamsma membrane.
Blender rendering of TLR4 in membrane and TIRAP fibrils at the plamsma membrane. View from the cytosol.
In our new preprint, we show how fibril-dynamics of signaling component TIRAP supports sensitive & fast sensing of endotoxin LPS. Congrats to co-lead @arthurfelker.bsky.social. @piehlerlab.bsky.social @arnemoeller.bsky.social #TLR #cryoEM #blender doi.org/10.64898/202...
Thanks to @actacrystf.iucr.org for highlighting our smart 2D selection tool CryoSift. You can test it yourself here cryosift.org
New preprint! We measured temperature- and pH-induced aggregation for over 18,000 natural and de novo designed protein domains!
Just installed Doppio on our Linux machine. This is awesome work making relion more accessible and easy to run. I haven't tried submitting jobs yet but it is already making our live easier!
I met Matt Iadanza at the CZI but I guess he doesn't have bluesky to tag!
CryoSift is now out @actacrystf.iucr.org doi.org/10.1107/S205... Thanks to all involved. Happy processing!
Lauren Alexandrescu et al.: `Mix-it-up': accessible time-resolved cryo-EM on the millisecond timescale #ElectronMicroscopy #CryoEM #TimeResolvedStudies ... #IUCr https://journals.iucr.org/paper?S2052252525008838
Excited to share a new chapter of my scientific journey in Chris Russo's group — developing a way to freeze proteins faster than they diffuse, paving the way for cryo-EM without air–water interface damage.
🚀 Introducing fully automated data processing for repeat-target #cryoEM.
Using new tools in #CryoSPARC, it is now possible to obtain resolutions & map quality equal to or better than manual processing, with zero user intervention.
Preprint: www.biorxiv.org/content/10.1...
Thanks @odedrechavi.bsky.social. Even without explicit coverage of structural biology, it did a great job as Reviewer #0 on my latest preprint. Highly recommend www.qedscience.com
I'll try and keep you updated. The story continues.
@maxewilkinson.bsky.social fun little cryo-EM puzzle. I am still pushing the resolution to let ModelAngelo do its magic. My guess was either a common amyloid binder like SAP or an intermediate of Lysozyme-amyloids...
Thanks @olibclarke.bsky.social I must have overlooked that one and should give it a go.
Reprocessed ALys Amyloids from EMPIAR-11785 Fändrich Lab
Amyloid reconstructions from cryoSPARC
Helical Reconstruction of Amyloids in cryoSPARC?
We present guidelines, limitations & future perspectives for processing amyloids in cryoSPARC @structurabio.bsky.social.
Great collaboration of the Kelly Lab and @landerlab.bsky.social #cryoEM #amyloid www.biorxiv.org/content/10.1...
