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Jan-Hannes Schaefer

@jhschaef.bsky.social
461 followers 499 following 82 posts

Structural Biology to the rescue. Postdoc at Scripps Research. jhschaefer.de ❄️🔬 🎹⛳

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Jan-Hannes Schaefer @jhschaef.bsky.social · 05/10/2026
New preprint! In collaboration with the Akbey lab at UPitt, we solved the cryo-EM structure of FapB, an accessory functional amyloid in Pseudomonas biofilms. It forms a cross-β-solenoid closely related to the major fibril FapC, and the two cross-seed each other. doi.org/10.64898/202...
Blender rendering of Pseudomonas Fap system
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Jan-Hannes Schaefer @jhschaef.bsky.social · 08/09/2026
Transthyretin doesn't exclusively unfold the way we thought. Under lysosomal pH (4-5), or with certain mutations, it takes an alternative route through a more expanded tetrameric transition state. And kinetic stabilizers work less well on it. @scripps.edu doi.org/10.1073/pnas...
Blender rendering of the diverging unfolding pathway of TTR
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Jan-Hannes Schaefer @jhschaef.bsky.social · 19/06/2026
Bacteriophage tails co-enrich with ex vivo amyloids from amyloidosis patients. Cryo-EM reveals Siphoviridae tail tube protein in ALys and AL amyloid extract. Do phages interact with human amyloids? @landerlab.bsky.social @nanigrotjahn.bsky.social & Kelly Lab #cryoEM #b3d doi.org/10.64898/202...
blender rendering of amyloids with phage tail tubes
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Jan-Hannes Schaefer @jhschaef.bsky.social · 09/06/2026
New paper out in @actacrystf.iucr.org! We benchmarked cryoSPARC for amyloid helical reconstruction: ease of use over RELION, but amyloid-specific development still needed & software interoperability remains a problem. @landerlab.bsky.social Kelly Lab @scripps.edu doi.org/10.1107/S205...
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Jan-Hannes Schaefer @jhschaef.bsky.social · 21/05/2026
A set of three tube diameters with constant wall thickness worked quite well. Set particle diameter 2-3x the actual size for a larger cross-correlation box of the template. Thanks again @olibclarke.bsky.social
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Jan-Hannes Schaefer @jhschaef.bsky.social · 21/05/2026
Great ideas @olibclarke.bsky.social How would you deal with these tubes? Filament tracer is picking the edges rather than center. CryOLO worked, but a native CS solution would be more convenient.
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Jan-Hannes Schaefer @jhschaef.bsky.social · 06/05/2026
In our new work from the Kelly, Ye & @landerlab.bsky.social , we link ATTR cardiomyopathy to microangiopathy. Increased capillary permeability exposes components of the vascular basement membrane to misfolded TTR. Work led by Joe Donnelly. #amyloidosis #cryoem #b3d doi.org/10.1161/JAHA...
TTR amyloids rendered with Blender
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Jan-Hannes Schaefer @jhschaef.bsky.social · 07/04/2026
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...
Blender Rendering of vitrified HA trimer with DM at the air-water interface
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Jan-Hannes Schaefer @jhschaef.bsky.social · 16/03/2026
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
ABC transporter Pgp in membrane. Blender Rendering
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Jan-Hannes Schaefer @jhschaef.bsky.social · 14/03/2026
For obvious reasons, we need a Paceometer! #endroadrage doi.org/10.1017/S193...
Pacometer vs. speedometer
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Jan-Hannes Schaefer @jhschaef.bsky.social · 17/12/2025
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...
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.
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Jan-Hannes Schaefer @jhschaef.bsky.social · 05/10/2025
Reprocessed ALys Amyloids from EMPIAR-11785 Fändrich Lab
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Jan-Hannes Schaefer @jhschaef.bsky.social · 05/10/2025
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...
Amyloid reconstructions from cryoSPARC
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Jan-Hannes Schaefer @jhschaef.bsky.social · 04/09/2025
I often go back to this striking study: doi.org/10.1126/scie...
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Jan-Hannes Schaefer @jhschaef.bsky.social · 01/08/2025
Check out our new preprint from the @landerlab.bsky.social, Stagg-Lab and Cianfrocco-Lab: CryoSift - An accessible and automated CNN-driven tool for cryo-EM 2D class selection www.biorxiv.org/content/10.1... Happy testing: cryosift.org #cryoEM #CNN
CryoSift – An accessible and automated CNN-driven
tool for cryo-EM 2D class selection
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Jan-Hannes Schaefer @jhschaef.bsky.social · 24/06/2025
Exited to share my first PostDoc contribution! Like Magellan explored the globe, you can explore your cryoEM data with Magellon. Congrats to all involved. Scott Stagg Lab & Michael Cianfrocco Lab @landerlab.bsky.social www.biorxiv.org/content/10.1... 🌎❄️🔬
Magellon GUI for cryoEM
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Jan-Hannes Schaefer @jhschaef.bsky.social · 24/04/2025
Do you want to visualize motion in protein structures? I've used @chimerax.ucsf.edu and little python code to do just that github.com/schaefer-jh/.... Here is some ABC transporter magic. #LLM assisted #coding
Motion visualization with ChimeraX
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Jan-Hannes Schaefer @jhschaef.bsky.social · 06/04/2025
New preprint. Mechanistic Plasticity of the RabGEFs Mon1-Ccz1 and Fuzzy-Inturned. Showing how TLD-RabGEFs adapt to different cellular functions. Congrats to first author @stephanwilmes.bsky.social from the Kümmel Lab. #cryoEM #openscience @arnemoeller.bsky.social doi.org/10.1101/2025...
Graphical abstract of Fuzzy-Inturned and Rab23 on liposomes.
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Jan-Hannes Schaefer @jhschaef.bsky.social · 08/12/2024
Spot the dolphin.
Dolphin and surfer decmber in San Diego.
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Jan-Hannes Schaefer @jhschaef.bsky.social · 14/11/2024
Thrilled to see another chapter of my PhD at Universität Osnabrück published at Nature Structural & Molecular Biology! Read more about how to make Ceramides and the Ping-Pong-Mechanism here - rdcu.be/dZZUF Thanks to all from the groups of Arne Moeller and Florian Fröhlich! #cryoEM 🔬❄️
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Jan-Hannes Schaefer @jhschaef.bsky.social · 04/05/2024
Happy to have contributed to solving Gaucher's disease GCase-LIMP-2 complex. Congrats to first Jan Philipp Dobert from Zunke-lab & Arnold-lab and all others. @MoellerGroup @Molecular_Neuro#b3d #cryoEM researchsquare.com/article/rs-433…
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Jan-Hannes Schaefer @jhschaef.bsky.social · 25/10/2023
Preprint Alert! 📣We've solved the first structure of a Ceramide Synthase. Great Team work @FlorianFrhlich3 @MoellerGroup @DJanuliene @UniOsnabrueck Thanks to co-first Lena Clausmeyer & Carolin Körner! #uos #cryoEM #openscience doi.org/10.1101/2023.1…
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Jan-Hannes Schaefer @jhschaef.bsky.social · 05/10/2023
Our paper on "Structure of the ceramide-bound SPOTS complex" is now out in @NatureComms - Fantastic teamwork with co-first Carolin Körner from @FlorianFrhlich3@MoellerGroup #CryoEM #UOS 🔬❄️ nature.com/articles/s4146…
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Jan-Hannes Schaefer @jhschaef.bsky.social · 01/06/2023
Happy to have contributed to our latest paper with @UngermannLab @LarsLangemeyer @MoellerGroup spearheaded by Twitterless Sophie Grziwa. Yck3 regulates membrane trafficking by phosphorylating I-BAR protein Ivy1. doi.org/10.1242/jcs.26…
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Jan-Hannes Schaefer @jhschaef.bsky.social · 09/05/2023
There is quiet nothing like sharing a new structure! "Structure of the metazoan Rab7 GEF complex Mon1-Ccz1-Bulli" form @MoellerGroup now out in PNAS. Fantastic collaboration with co-first @stEricHerrmann and @StephanWilmes from @KuemmelLab and @UngermannLab. #cryoEM #UOS #b3d
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Jan-Hannes Schaefer @jhschaef.bsky.social · 04/02/2023
Thrilled to share our new @biorxivpreprint: "Structure of the ceramide-bound SPOTS complex" from @MoellerGroup @DJanuliene @krparey. Great collaboration with @FlorianFrhlich3 lab, spearheaded by Carolin Körner. #CryoEM biorxiv.org/content/10.110…
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