Jan Binovsky

Much needed addition to the AlphaFold Database! 💻 Large potential for use in #StructuralBiology #Phage research.

Always happy to provide "wonderfully bad mmCIF files" to make #chimeraX better!

Nice work and awesome #scicomm thread!

A picture of a Fresian cow whose markings resemble influenza viruses

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

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.

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...

I appreciate the stats! Thanks, @pdbeurope.bsky.social for a summary!

PDB101: Molecule of the Month: Assembly Line Polyketide Synthases Large multienzyme complexes that synthesize diverse small molecules in a stepwise manner.

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

Amazing work and resource! 😍

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! :)

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.

🎄Xmas office cleaning 🗑️

...and how do you organize your thoughts? 🫵

#PhDlife #PhDSky #mindmap

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!

impressive structures! Congrats!

Thanks, I am glad you like it!

can I join the list? ✌️🙂

Dear #StructuralBiology #PhD #PostDoc peers, join in!

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 ✌️

are #CryoEMemes back?😀

Hi Daniel, great idea! Please add me there🤙

Another useful starter pack 👇

In case someone is looking for this...

Hi, can you add me to the list, please? I'd be happy to connect with other structural biologists!

I would like to be added to the list🙌

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 🐘

thank you! 🙂

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

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

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.

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

Changes in the baseplate arms' positions are relayed to the wedge modules and tail sheath initiator proteins, causing their iris-like expansion 👁️ and triggering a gradual tail sheath contraction. This 🌊-like process drives the tail tube through the host cell wall 💉.

8/11

Cryo-electron micrograph of phage phi812 with a semi-contracted tail sheath. Phage is attached to a cell wall of S. aureus.

The transformation of tripod complexes frees the hub protein domains to degrade peptidoglycan ✂️ and facilitate penetration of the tail tube through the cell membrane.

But how does the tail tube move towards the cell❓

7/11

Panel A: Cryo-electron micrograph of the phi812 baseplate. The white dashed rectangle contains the coiled-coil, knob, and petal domains of the trimer of central spike proteins. Scale bar 100 Å. Panel B: The surface representation of the cryo-EM reconstruction of the native phi812 baseplate is colored in gray except for central spike, hub, and weld proteins. The front part of the baseplate has been removed. Scale bar 100 Å.

The central spike protein of phi812 protrudes 22 nm from the baseplate and degrades teichoic acids✂️, enabling the tripod complexes to anchor the phage on the cell wall ⚓️.

6/11