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Ján Bíňovský

@jbinovsky.bsky.social
1.1K followers 1.3K following 62 posts

Postdoc @MPI of Biochemistry, Sokolova Lab 🇩🇪 | PhD @CEITEC_Brno, Plevka Lab 🇨🇿 | biochemistry & structural biology 🧬🔬

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Ján Bíňovský @jbinovsky.bsky.social · 27/09/2026
Congrats, Rasmus! A great development of the story since I’ve seen it at the 3DEM GRC 2024 👏🏼
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Ján Bíňovský @jbinovsky.bsky.social · 27/09/2026
Passing this along, because I am genuinely curious about answers.
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Ján Bíňovský @jbinovsky.bsky.social · 23/09/2026
Note to self: Do not work late just because of the view! #postdocsky
View through an open laboratory window at sunset. Pink and orange clouds stretch across a pale blue sky above the dark silhouettes of trees and nearby buildings.
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Ján Bíňovský @jbinovsky.bsky.social · 04/09/2026
If you work on phage transcription, unusual RNA polymerases, or modified nucleic acids, I’d be glad to connect and exchange ideas! #phagesky #Microsky 2/2
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Ján Bíňovský @jbinovsky.bsky.social · 04/09/2026
Phages are weird. Some have T replaced by U in their DNA. In my new role as a #postdoc in Maria Sokolova’s group at the @mpibiochem.bsky.social, I’ll investigate how their transcription machinery recognizes and reads this unusual genome 🧬 1/2
Selfie of a man in a red sweater standing outside the Max Planck Institute in Martinsried. Behind him, a large black wall sign reads “max-planck-institute martinsried” and “biochemie biologische intelligenz.”
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Ján Bíňovský @jbinovsky.bsky.social · 03/09/2026
Huge achievement, congrats!
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Ján Bíňovský @jbinovsky.bsky.social · 23/07/2026
thanks!
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Reposted by Ján Bíňovský
Jeff Lengyel & TEM Team at Thermo Fisher Scientific @jefflengyeltemteam.bsky.social · 14/07/2026
A beautiful journey through the nuclear pore complex with #cryoET - samples prepared via the Arctis Cryo-Plasma-FIB, data collected with the Glacios Cryo-TEM and segmented in Amira Software. #TeamTomo - See what’s possible with 200 kV cryo-ET: ter.li/n2a8i5po
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Ján Bíňovský @jbinovsky.bsky.social · 10/07/2026
"Why paying peer reviewers works, according to a journal’s editor-in-chief" I wonder if this is going to change anything.....old idea, new data, uncertain impact. Your thoughts? www.nature.com/articles/d41...
nature.com
Why paying peer reviewers works, according to a journal’s editor-in-chief
A biology journal that paid peer reviewers found that the approach cut the time to a first editorial decision by 85% and maintained high-quality reviews.
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
thank you!
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
Thanks, Juan Carlos!
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
Thanks to my colleagues and collaborators🙏 @plevkalab.bsky.social @ceitec.eu And thank you for reading! Let me know if you have any comments or questions. Full story here: doi.org/10.1038/s44318-026-00834-9 8/8
doi.org
Conformational changes of the baseplate regulating tail contraction of Staphylococcus phage 812 - The EMBO Journal
Phages with contractile tails employ elaborate mechanisms to penetrate bacterial cell walls and deliver their genomes into the host cytoplasm. Here, we used cryo-EM to show that the baseplate of phage 812, a member of the Kayvirus genus, which infects Gram-positive Staphylococcus strains, is formed of a core, wedge modules, and baseplate arms carrying receptor-binding proteins 1 and 2 and tripod complexes. Upon binding to a host cell, the receptor-binding proteins of phage 812 baseplate reorient and undergo conformational changes. The changes to the tripod complexes trigger the release of the central spike and weld proteins, which expose peptidoglycan-degrading domains of the hub proteins. Changes in the positions of baseplate arms are transmitted through wedge modules to tail sheath initiator proteins. The ring of the tail sheath initiator proteins expands and triggers the contraction of the tail sheath, which shortens to 50% and pushes the tail tube 10–30 nm into the bacterial cytoplasm. Homologous molecular mechanisms are probably shared by phages of the Herelleviridae family with contractile tails to infect Gram-positive bacteria.
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
Finally, we propose a mechanism by which the phage 812 initiates its infection. Other contractile-tailed phages infecting Gram+ bacteria likely share such structural features and infection mechanism 💉🦠 7/8
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
As the tail sheath contracts, the tail tube is driven toward the host envelope. We detected enzymatic and membrane-interacting domains (and their putative targets) that may facilitate the envelope penetration. 6/8
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
Conformational changes to the baseplate arms cause expansion of the central protein structures, which in turn trigger the tail sheath contraction. 5/8
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
We also got a clearer view of the baseplate in the contracted (post-attachment) state, which only reinforced our previous view of how the baseplate reorganizes its structure: the tripod and RBP proteins reorient, stabilizing the baseplate and anchoring it to the host envelope. 4/8
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
First of all, we resolved more proteins and domains at the periphery of the native (pre-attachment) baseplate, making a near-complete picture of the whole complex. 3/8
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
The manuscript has undergone a major overhaul since 2024. As a result, we determined the baseplate structure of contractile phage 812 in much greater detail. bsky.app/profile/jbin... 2/8
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Ján Bíňovský @jbinovsky.bsky.social · 02/07/2026
🔥My first (co)first-author paper is out🔥 The surfaces of Gram+ and Gram- bacteria are markedly different from each other. How are phages equipped to breach the Gram+ envelope❓ 💡We report a baseplate structure uniquely adapted to infect Gram+ S. aureus. A 🧵⬇️ 1/8 #phagesky #cryoEM 🧪
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Ján Bíňovský @jbinovsky.bsky.social · 30/06/2026
thanks!
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Ján Bíňovský @jbinovsky.bsky.social · 19/06/2026
I love when real life issues get explained by science (scientists) so elegantly 👏🏻
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Reposted by Ján Bíňovský
Microbes.Info @microbesinfo.bsky.social · 10/03/2026
High-Resolution #virus blueprint offers new hope against #antibiotic resistance ... | #antibioticresistance | #bacteria | #bacteriophages | #phage | By @universityofotago.bsky.social via scitechdaily .com
scitechdaily.com
Stunning High-Resolution Virus Blueprint Offers New Hope Against Antibiotic Resistance
A detailed 3D map of a bacteria-hunting virus reveals ancient origins and new promise against superbugs.
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Reposted by Ján Bíňovský
Aritz Roa-Eguiara @aritz-roa.bsky.social · 07/03/2026
🚨Preprint! Happy to share the research from my PhD “Genome delivery of a contractile tailed phage and its superinfection exclusion mechanism”. We use cryoEM to study the genome ejection of the phage T4, revealing how the tape measure protein regulates the process. www.biorxiv.org/content/10.6...
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Ján Bíňovský @jbinovsky.bsky.social · 19/05/2025
Much needed addition to the AlphaFold Database! 💻 Large potential for use in #StructuralBiology #Phage research.
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Ján Bíňovský @jbinovsky.bsky.social · 28/04/2025
Always happy to provide "wonderfully bad mmCIF files" to make #chimeraX better!
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Ján Bíňovský @jbinovsky.bsky.social · 18/04/2025
Nice work and awesome #scicomm thread!
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Reposted by Ján Bíňovský
Ed Hutchinson @socialinfluenza.bsky.social · 30/01/2025
Our study on pasteurising influenza viruses in milk is now out! It's a nice simple story: influenza viruses (including H5N1) are killed really effectively by pasteurisation, but in raw milk they stay infectious - obvious public health implications of both points... (1/2) rdcu.be/d73te
A picture of a Fresian cow whose markings resemble influenza viruses
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Reposted by Ján Bíňovský
Rita Strack @ritastrack.bsky.social · 22/01/2025
I'd like to draw your attention to this truly excellent paper from the Taraska lab on cryoET of plasma membrane associated proteins. Everyone who is thinking about probes in the cryoET space should also see what they could do with ferritag (fig 6) www.nature.com/articles/s41...
This is a scientific figure from the paper mentioned in the post. It shows fluorescence and electron microscopy images and associated schematics for using the ferritag to image clathrin coated pit proteins.
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Ján Bíňovský @jbinovsky.bsky.social · 13/01/2025
I appreciate the stats! Thanks, @pdbeurope.bsky.social for a summary!
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Reposted by Ján Bíňovský
Janet Iwasa @jiwasa.bsky.social · 07/01/2025
I'm happy and humbled to take on a new role with @rcsbpdb.bsky.social. I'll be continuing David Goodsell's work on the Molecule of the Month, starting with my first article on Assembly Line Polyketide Synthases! Check it out (animation included!) pdb101.rcsb.org/motm/301
pdb101.rcsb.org
PDB101: Molecule of the Month: Assembly Line Polyketide Synthases
Large multienzyme complexes that synthesize diverse small molecules in a stepwise manner.
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Ján Bíňovský @jbinovsky.bsky.social · 06/01/2025
Amazing work and resource! 😍
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Reposted by Ján Bíňovský
Fabian Eisenstein @eisfabian.bsky.social · 17/12/2024
SPACEtomo v1.2 is online! github.com/eisfabian/SP... - Improved GUIs for lamella detection, target selection and CLEM registration make it the best target selection workflow for PACEtomo on any kind of lamella sample. - Easier installation and configuration Any feedback is much appreciated! :)
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Ján Bíňovský @jbinovsky.bsky.social · 17/12/2024
🎄Xmas office cleaning 🗑️ ...and how do you organize your thoughts? 🫵 #PhDlife #PhDSky #mindmap
The image is a mind map drawn on white paper, used for organizing thoughts before writing a paragraph. It contains various interconnected words and phrases, with many items circled, underlined, or checked off using green and red pens. Some words and phrases are marked with red circles, possibly indicating key points, while others have green checkmarks denoting completion. Additional notes and arrows are scattered across the sheet, suggesting a workflow for developing ideas. The lower section includes handwritten notes in red and green ink, outlining tasks like measuring angles, verifying structures, and calculating specific parameters.
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Ján Bíňovský @jbinovsky.bsky.social · 11/12/2024
I knew it wouldn't be long before we see #cryoEM structures of a #phage cousin infecting #Archea 🦠 🧪 Beautiful structures from @daumlab.bsky.social, congrats!
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Ján Bíňovský @jbinovsky.bsky.social · 10/12/2024
impressive structures! Congrats!
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Ján Bíňovský @jbinovsky.bsky.social · 26/11/2024
Thanks, I am glad you like it!
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Ján Bíňovský @jbinovsky.bsky.social · 26/11/2024
can I join the list? ✌️🙂
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Ján Bíňovský @jbinovsky.bsky.social · 22/11/2024
Dear #StructuralBiology #PhD #PostDoc peers, join in!
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Ján Bíňovský @jbinovsky.bsky.social · 22/11/2024
Thanks for doing this! Can you add me to the list? I am a PhD candidate in Structural Biology program at CEITEC in Brno, CZ ✌️
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Ján Bíňovský @jbinovsky.bsky.social · 15/11/2024
are #CryoEMemes back?😀
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Ján Bíňovský @jbinovsky.bsky.social · 15/11/2024
Hi Daniel, great idea! Please add me there🤙
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Ján Bíňovský @jbinovsky.bsky.social · 15/11/2024
Another useful starter pack 👇
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Ján Bíňovský @jbinovsky.bsky.social · 14/11/2024
In case someone is looking for this...
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Ján Bíňovský @jbinovsky.bsky.social · 14/11/2024
Hi, can you add me to the list, please? I'd be happy to connect with other structural biologists!
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Ján Bíňovský @jbinovsky.bsky.social · 14/11/2024
I would like to be added to the list🙌
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Ján Bíňovský @jbinovsky.bsky.social · 08/11/2024
Just uploaded a revised version of the manuscript on bioRxiv 🙌 We made some changes to the text and figures, mainly to clarify the naming of proteins. Yeah, it's a challenge to describe things within two different 10MDa structures 🐘
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Ján Bíňovský @jbinovsky.bsky.social · 24/09/2024
thank you! 🙂
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Ján Bíňovský @jbinovsky.bsky.social · 23/09/2024
Thanks for reading! If you found this thread interesting, pass it along! bsky.app/profile/jbin... Hopefully, the peer-reviewed version will follow! Also, if you find any mistakes or have suggestions, drop me a ✉️ 11/11
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Ján Bíňovský @jbinovsky.bsky.social · 23/09/2024
Thanks to my amazing co-first author Marta Šiborová and people from the Plevka Lab for their incredible support 🙌 Special shoutout to all collaborators for their contributions 📈💡 10/11
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Ján Bíňovský @jbinovsky.bsky.social · 23/09/2024
The tail sheath contraction pushes the tail tube's tip into the host cytoplasm, where the genome is ejected 🧬 and infection occurs. Our structural study of phi812 cell wall binding opens up the possibility of designing phi812 to target specific #SAureus strains 🎯 9/11
Schematic illustration of phage attachment and penetration through a bacterial cell wall. The diagram shows multiple stages of a baseplate interacting with the bacterial envelope, progressing from initial attachment to full penetration. The bacterial layers, including peptidoglycan (PG) and cytoplasmic membrane (CM), are labeled, with viral components depicted in different colors, illustrating the stepwise mechanism of infection.
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