Boris Bogdanow

It’s out! Using cryo-ET in Dicty cells, we take a fresh in situ look at vaults. Surprisingly, we uncover vaults associated with ER and NE membranes, and find that many vaults enclose ribosomes in defined orientations, opening new avenues to their cellular function! www.biorxiv.org/lookup/conte...

IsoNet2 determines cellular structures at submolecular resolution without averaging https://www.biorxiv.org/content/10.64898/2025.12.09.693325v1

Structural host-virus interactome profiling of intact infected cells - Nature Communications Virus-host protein-protein interactions are fundamental to viral pathogenesis, yet few are structurally resolved. Here, the authors combine cross-linking mass spectrometry, bio-orthogonal labeling…

Excited to share: A Nature Communications study led by Fan Liu (Absea SAB Chair, FMP Berlin) introduces SHVIP—a method revealing 739 virus–host PPIs in intact HSV-1 infected cells.
It preserves membrane structure & uses AlphaFold to interpret complex networks.

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Snapshot of in-cell protein contact sites reveals new host factors and hijacking of paraspeckles during influenza A virus infection Influenza A virus (IAV) hijacks host cellular machinery, but many virus-IAV interactions and contacting protein sites remain uncharacterised, particularly those dependent on intact cellular architectu...

Curious about other viruses? Then also check out how SHVIP is applied to Influenza A virus infection of human cells and how it led to the identification of novel host factors. Pre-print with @jankosinski.bsky.social lab: doi.org/10.1101/2025...

A big integrative effort! XL-MS: Lars Mühlberg, @juliaruta.bsky.social and @fan-liu.bsky.social. Infectious work: Iris Gruska, Barbara Vetter and Lüder Wiebusch. Modeling: @bioinfo.se

Why its relevant:
- It captures >700 PPIs and >6,000 cross-links
- It resolves compartment-specific interactions at the intact membrane system
- It integrates with AlphaFold to map domain-level PPIs, even in disordered regions
- It is validated by molecular virology + mutagenesis

SHVIP combines bio-orthogonal labeling during host shutoff and cross-linking mass-spec (XL-MS). XL-MS resolves proximity-based protein-protein interactions residue contact sites in situ and the bio-orthogonal labeling increases sensitivity of virus-specific interactome capture.

Structural host-virus interactome profiling of intact infected cells - Nature Communications Virus-host protein-protein interactions are fundamental to viral pathogenesis, yet few are structurally resolved. Here, the authors combine cross-linking mass spectrometry, bio-orthogonal labeling and...

Check out Structural Host–Virus Interactome Profiling (SHVIP) in intact cells infected with Herpes Simplex Virus type 1 (HSV-1)! Now published!

📄 www.nature.com/articles/s41...
#LoveVirology #TeamMassSpec

Building atomic models to cryo-EM maps of huge molecules is intimidating: crowded, uncertain copy numbers, variable resolution ...
Fan Liu and team incl us, show how cross-linking MS can be used to build novel models of unknown complexes, like a giant Melbourne virus
biorxiv.org/content/10.1...