Terukazu Nogi

Scalable emulation of protein equilibrium ensembles with generative deep learning Following the sequence and structure revolutions, predicting functionally relevant protein structure changes at scale remains an outstanding challenge. We introduce BioEmu, a deep learning system that...

Scalable emulation of protein equilibrium ensembles with generative deep learning | Science www.science.org/doi/10.1126/...

23.07.2025 09:20 — 👍 0    🔁 0    💬 0    📌 0

NIH-funded science must now be free to read instantly: what you should know Nature - US biomedical agency’s public-access policy kicks in on 1 July. Nature talks to specialists about how to comply.

Researchers funded by the NIH will be required to make their scientific papers available to read for free as soon as they are published

https://go.nature.com/3I0dtXr

28.06.2025 16:22 — 👍 77    🔁 17    💬 3    📌 4

Overall architecture of the SmsC2B2 complex. Top left: AMP-PNP-loaded SmsC2B2 crystal structure. Top right: Close-up on the binding site of the AMP-PNP/Mg2+ showing residues surrounding the binding site of AMP-PNP. Bottom left: Cryo-EM structure of the [Fe-S]-bound SmsC2B2 complex. Bottom right: Close-up on the binding site of the [Fe-S] cluster showing the C218, C239, and C242 coordinating the [Fe-S] cluster. The cluster binding site lies in a solvent-exposed hydrophobic pocket consisting of residues P40, L216, I223, Y235, F234, and P247.

The minimal #IronSulfurCluster [Fe-S] biogenesis systems MIS & SMS are ancestral to modern ones. This study shows that the ancestral SMS system from M. jannaschii assembles [Fe-S] clusters via unique ATP-regulated mechanisms & uses sulfide as a #sulfur source @plosbiology.org 🧪 plos.io/46l0BoC

26.06.2025 16:38 — 👍 7    🔁 3    💬 0    📌 1

The Na+-pumping mechanism driven by redox reactions in the NADH-quinone oxidoreductase from Vibrio cholerae relies on dynamic conformational changes www.biorxiv.org/content/10.1101/2025.06.01.656757v1 #cryoEM

02.06.2025 07:10 — 👍 3    🔁 1    💬 0    📌 0

Structure and organization of full-length epidermal growth factor receptor in extracellular vesicles by cryo-electron tomography pubmed.ncbi.nlm.nih.gov/40455995/ #cryoEM

03.06.2025 13:44 — 👍 3    🔁 2    💬 0    📌 0

Microbe that infests hospitals can digest medical-grade plastic ― a first The bacterium Pseudomonas aeruginosa produces an enzyme that breaks down biodegradable plastics.

A strain of bacterium that often causes infections in hospital can break down plastic

https://go.nature.com/434BcfX

08.05.2025 11:52 — 👍 68    🔁 16    💬 0    📌 5

Instrumentation and methods for efficient time-resolved X-ray crystallography of biomolecular systems with sub-10 ms time resolution pubmed.ncbi.nlm.nih.gov/40277177/ #cryoEM

26.04.2025 18:40 — 👍 1    🔁 1    💬 0    📌 0

Structural basis of urate transport by glucose transporter 9 Matsushita et al. report cryo-EM structures of a urate transporter, GLUT9, in apo and urate-bound states, revealing a unique recognition manner as compared to conventional GLUTs. Functional analysis revealed the importance of collective action by several residues in the urate pocket.

Structural basis of urate transport by glucose transporter 9

07.04.2025 19:50 — 👍 0    🔁 1    💬 0    📌 0

Cryo-EM structure of the bacterial intramembrane metalloprotease RseP in the substrate-bound state Cryo-EM analysis suggests that bacterial group I site-2 proteases accommodate substrates into an occluded transmembrane cavity.

Our new paper on the cryo-EM SPA of intramembrane protease RseP has been oublished online. www.science.org/doi/10.1126/...

27.02.2025 00:38 — 👍 3    🔁 0    💬 0    📌 0

Watch the neutrophil response in zebrafish larvae to salmonella infection from this January paper. #12DaysOfeLife
https://buff.ly/4gKVws2

27.12.2024 16:44 — 👍 15    🔁 3    💬 0    📌 0

A fun journey of full-length EGFR with Dan Leahy and
@edwardmarcotte.bsky.social at UT Austin @utaustin.bsky.social. See below:
Structure and organization of full-length Epidermal Growth Factor Receptor in extracellular vesicles by cryo-electron tomography www.biorxiv.org/content/10.1...

29.11.2024 06:14 — 👍 90    🔁 24    💬 6    📌 6