@vincentchaptal.bsky.social
Reposted
Holy shit.
MISO: microfluidic protein isolation enables single-particle cryo-EM structure determination from a single cell colony.
Or from a single dish of HEK cell culture in the case of two membrane proteins.
Out in Nature Methods now! lnkd.in/gpyBSceg
Wonderful collaboration with the Efremov lab.
Or from a single dish of HEK cell culture in the case of two membrane proteins.
Out in Nature Methods now! lnkd.in/gpyBSceg
Wonderful collaboration with the Efremov lab.
November 15, 2025 at 1:41 PM
Holy shit.
Reposted
Finally out in print! Long time project with @olexandr.bsky.social and the PHENIX group. Refinement of X-ray and CryoEM structures, using Machine Learned Potentials as the back end to help fitting. This fulfills the old dream of doing QM refinement, but very very cheap www.nature.com/articles/s41...
AQuaRef: machine learning accelerated quantum refinement of protein structures - Nature Communications
AQuaRef employs machine learning to refine protein structures from cryo-EM and X-ray data in Phenix. It achieves quantum-level precision, improving model geometry and fit to the data while reducing ov...
www.nature.com
October 23, 2025 at 3:20 PM
Finally out in print! Long time project with @olexandr.bsky.social and the PHENIX group. Refinement of X-ray and CryoEM structures, using Machine Learned Potentials as the back end to help fitting. This fulfills the old dream of doing QM refinement, but very very cheap www.nature.com/articles/s41...
Looking very promising, it's a great idea. Can't wait to test it.
🚀 Introducing fully automated data processing for repeat-target #cryoEM.
Using new tools in #CryoSPARC, it is now possible to obtain resolutions & map quality equal to or better than manual processing, with zero user intervention.
Preprint: www.biorxiv.org/content/10.1...
Using new tools in #CryoSPARC, it is now possible to obtain resolutions & map quality equal to or better than manual processing, with zero user intervention.
Preprint: www.biorxiv.org/content/10.1...
October 21, 2025 at 4:34 AM
Looking very promising, it's a great idea. Can't wait to test it.
Very clever!
This October I’m drawing 1 molecule a day inspired by proteins in pdb @rcsbpdb.bsky.social
Day 13
Prompt DRINK
Pdb: 7BTW
A pair of mitochondrial outer membrane β-barrel SAM complexes from Saccharomyces cerevisiae, the yeast used to make beer.
Cheers!
Next: TRUNK
Suggestions?
Day 13
Prompt DRINK
Pdb: 7BTW
A pair of mitochondrial outer membrane β-barrel SAM complexes from Saccharomyces cerevisiae, the yeast used to make beer.
Cheers!
Next: TRUNK
Suggestions?
October 16, 2025 at 8:52 AM
Very clever!
Thanks for sharing Oli.
FYI I tried it on a larger membrane protein for which the 2D classes were not high res (not enough particles) but I hoped for a miracle. The miracle didn't come, I ended with a high res bad model, a negative control I guess.
I'll nevertheless keep the preprint in my folder
FYI I tried it on a larger membrane protein for which the 2D classes were not high res (not enough particles) but I hoped for a miracle. The miracle didn't come, I ended with a high res bad model, a negative control I guess.
I'll nevertheless keep the preprint in my folder
Initial attempt at replicating in relion (parameters in next post). This is for Aca2-RNA, using a 100k subset of the 2D-classified particles (no prior 3D cleanup).
A 1-class ab initio in relion, then local refinement in relion (1.8deg searches+blush) gives a nominally 3.3Å map; 3.5 Å w/out blush.
A 1-class ab initio in relion, then local refinement in relion (1.8deg searches+blush) gives a nominally 3.3Å map; 3.5 Å w/out blush.
September 30, 2025 at 8:34 AM
Thanks for sharing Oli.
FYI I tried it on a larger membrane protein for which the 2D classes were not high res (not enough particles) but I hoped for a miracle. The miracle didn't come, I ended with a high res bad model, a negative control I guess.
I'll nevertheless keep the preprint in my folder
FYI I tried it on a larger membrane protein for which the 2D classes were not high res (not enough particles) but I hoped for a miracle. The miracle didn't come, I ended with a high res bad model, a negative control I guess.
I'll nevertheless keep the preprint in my folder
Reposted
Soon... a new building for our laboratory, with 1400m² extra and renovated space to host new equipements such as cryoEM, CryoFIB-SEM, optical microscopies in biosafe confined environment, and a synthetic biology labs.
Lancement ce jour du projet d'extension de notre laboratoire. 1100m² de nouveaux espaces et 280m² rehabilités.
Merci pour leur soutien à nos tutelles et nos partenaires.
@inserm.fr @cnrs.fr @umontpellier.bsky.social
@occitanie.bsky.social @villedemontpellier.bsky.social
& l'Etat
Merci pour leur soutien à nos tutelles et nos partenaires.
@inserm.fr @cnrs.fr @umontpellier.bsky.social
@occitanie.bsky.social @villedemontpellier.bsky.social
& l'Etat
September 20, 2025 at 8:36 AM
Soon... a new building for our laboratory, with 1400m² extra and renovated space to host new equipements such as cryoEM, CryoFIB-SEM, optical microscopies in biosafe confined environment, and a synthetic biology labs.
Reposted
This one is a bit of a departure from the usual and definitely a work in progress!
We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.
Read on for details... 1/x
We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.
Read on for details... 1/x
September 13, 2025 at 12:05 AM
This one is a bit of a departure from the usual and definitely a work in progress!
We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.
Read on for details... 1/x
We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.
Read on for details... 1/x
Reposted
Now out in Structure: Paper on high-resolution #cryoEM using the 100 kV Tundra cryo-TEM by Dimple Karia, Adrian Koh, @abhaykot.bsky.social, @lingboyu.bsky.social, @landerlab.bsky.social and many others. Happy to have contributed to this effort. Check it out:
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Sub-3 Å resolution protein structure determination by single-particle cryo-EM at 100 keV
Cryoelectron microscopy (cryo-EM) has transformed structural biology by providing high-resolution insights into biological macromolecules. We report s…
www.sciencedirect.com
July 30, 2025 at 9:50 PM
Now out in Structure: Paper on high-resolution #cryoEM using the 100 kV Tundra cryo-TEM by Dimple Karia, Adrian Koh, @abhaykot.bsky.social, @lingboyu.bsky.social, @landerlab.bsky.social and many others. Happy to have contributed to this effort. Check it out:
www.sciencedirect.com/science/arti...
www.sciencedirect.com/science/arti...
Reposted
NEW from me at STAT:
We've learned that DeepMind is going to fund CASP, the protein structure competition that brought Google DeepMind's #AlphaFold to prominence (and a Nobel Prize), as its NIH funding runs out.
More @statnews.com:
www.statnews.com/2025/07/21/c...
🖥️🩺🧪🧬 #bioML
We've learned that DeepMind is going to fund CASP, the protein structure competition that brought Google DeepMind's #AlphaFold to prominence (and a Nobel Prize), as its NIH funding runs out.
More @statnews.com:
www.statnews.com/2025/07/21/c...
🖥️🩺🧪🧬 #bioML
AlphaFold developer Google DeepMind to fund CASP as NIH funding falls short
Protein structure prediction contest CASP gets temporary funding from Google DeepMind as NIH grant runs out.
www.statnews.com
July 21, 2025 at 4:40 PM
NEW from me at STAT:
We've learned that DeepMind is going to fund CASP, the protein structure competition that brought Google DeepMind's #AlphaFold to prominence (and a Nobel Prize), as its NIH funding runs out.
More @statnews.com:
www.statnews.com/2025/07/21/c...
🖥️🩺🧪🧬 #bioML
We've learned that DeepMind is going to fund CASP, the protein structure competition that brought Google DeepMind's #AlphaFold to prominence (and a Nobel Prize), as its NIH funding runs out.
More @statnews.com:
www.statnews.com/2025/07/21/c...
🖥️🩺🧪🧬 #bioML
Reposted
Tucked away in the 'One Big Beautiful Bill' is the requirement that all visitors to the US must pay $250 just to enter the country starting 1 October! For a family of 5 that's $1250! I doubt this will help America's crashing tourism business which is down 10% already since January
July 18, 2025 at 4:45 PM
Tucked away in the 'One Big Beautiful Bill' is the requirement that all visitors to the US must pay $250 just to enter the country starting 1 October! For a family of 5 that's $1250! I doubt this will help America's crashing tourism business which is down 10% already since January
Thank you to our laureates who work everyday to make science more sustainable.
Many small steps that can make a difference.
Why not do them?
What's your action today?
Many small steps that can make a difference.
Why not do them?
What's your action today?
🌿Congrats to the Equipe Projet VERT: Marine Blanc, Sandrine Magnard, Lauriane Lecoq (MMSB UMR 5086), Sandrine Vadon-Le Goff (LBTI UMR 5305), Nicolas Grimault (IBCP UAR 3760) and Virginie Gueguen-Chaignon (SFR Biosciences UAR 3444) for their Cristal Collectif Medal!
✨Towards more sustainable science!
✨Towards more sustainable science!
👏 Félicitations aux lauréates et lauréats 2025 de la Médaille de cristal collectif qui distingue des équipes d’appui à la recherche, ayant mené des projets particulièrement remarquables.
👉 www.cnrs.fr/fr/actualite...
#TalentsCNRS
👉 www.cnrs.fr/fr/actualite...
#TalentsCNRS
July 9, 2025 at 5:40 AM
Thank you to our laureates who work everyday to make science more sustainable.
Many small steps that can make a difference.
Why not do them?
What's your action today?
Many small steps that can make a difference.
Why not do them?
What's your action today?
A great stimulating place to work and collaborate.
The place where I work is hiring an expert in AI applied to the de novo design of proteins: urls.fr/DpLCMY
Excellent structural biology environment, amazing city surrounded by mountains.
Excellent structural biology environment, amazing city surrounded by mountains.
June 27, 2025 at 4:37 AM
A great stimulating place to work and collaborate.
Reposted
Breaking news: The National Institutes of Health has ceased terminating grants on politically sensitive topics after a federal judge ruled last week that the cancellations were illegal.
scim.ag/4l9MO8Y
scim.ag/4l9MO8Y
Following court order, NIH ceases new terminations of politically sensitive grants
After a judge told agency to restore hundreds of killed grants, NIH backs off plans to cancel more existing projects
scim.ag
June 25, 2025 at 5:36 PM
Breaking news: The National Institutes of Health has ceased terminating grants on politically sensitive topics after a federal judge ruled last week that the cancellations were illegal.
scim.ag/4l9MO8Y
scim.ag/4l9MO8Y
Reposted
Looking for a deep dive into 2D classification in #cryoEM?
These recent guide pages cover practical aspects & parameter choices when running these jobs in #CryoSPARC, along with the theory behind expectation maximization: guide.cryosparc.com/processing-d... and guide.cryosparc.com/expectation-...
These recent guide pages cover practical aspects & parameter choices when running these jobs in #CryoSPARC, along with the theory behind expectation maximization: guide.cryosparc.com/processing-d... and guide.cryosparc.com/expectation-...
June 24, 2025 at 2:44 PM
Looking for a deep dive into 2D classification in #cryoEM?
These recent guide pages cover practical aspects & parameter choices when running these jobs in #CryoSPARC, along with the theory behind expectation maximization: guide.cryosparc.com/processing-d... and guide.cryosparc.com/expectation-...
These recent guide pages cover practical aspects & parameter choices when running these jobs in #CryoSPARC, along with the theory behind expectation maximization: guide.cryosparc.com/processing-d... and guide.cryosparc.com/expectation-...
Reposted
New work from our lab. Structures of K2P6.1 (TWIK2) that yield a new and suprising perspective on how lipids affect K2P channels. Great work from Abishek Mondal and Sangeeta Niranjan in my lab.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
June 15, 2025 at 10:52 PM
New work from our lab. Structures of K2P6.1 (TWIK2) that yield a new and suprising perspective on how lipids affect K2P channels. Great work from Abishek Mondal and Sangeeta Niranjan in my lab.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted
Congratulations to Lauriane @mmsb-lyon.bsky.social and all the group for this splendid work
Dans l’intimité moléculaire du virus de l’hépatite D ? De nouvelles stratégies thérapeutiques ciblant l’assemblage du virus 🦠
🤝 @cnrs-rhoneauvergne.bsky.social
👉 L'article dans @pubs.acs.org buff.ly/qR4S6l1
👉 L'article dans @pnas.org buff.ly/DpzH5eQ
buff.ly/gISBHZa
🤝 @cnrs-rhoneauvergne.bsky.social
👉 L'article dans @pubs.acs.org buff.ly/qR4S6l1
👉 L'article dans @pnas.org buff.ly/DpzH5eQ
buff.ly/gISBHZa
June 6, 2025 at 6:16 AM
Congratulations to Lauriane @mmsb-lyon.bsky.social and all the group for this splendid work
Reposted
🎉 Congratulations to Alexia from the Drug Resistance & Membrane Proteins Group at MMSB and her coworkers for being awarded the 'Article of the Month-May 2025' by the @sfbbm.bsky.social for their publication!
The SFBBM highlight is available here:
www.sfbbm.fr/index.php?op...
The SFBBM highlight is available here:
www.sfbbm.fr/index.php?op...
Rhodamine6G and Hœchst33342 narrow BmrA conformational spectrum for a more efficient use of ATP - Nature Communications
ABC transporters are mobile and adaptative molecular machines. Here, Gobet et al characterize how substrate-binding influences the ABC transporter BmrA and triggers cooperativity in ATP-binding, utili...
doi.org
June 3, 2025 at 10:22 AM
🎉 Congratulations to Alexia from the Drug Resistance & Membrane Proteins Group at MMSB and her coworkers for being awarded the 'Article of the Month-May 2025' by the @sfbbm.bsky.social for their publication!
The SFBBM highlight is available here:
www.sfbbm.fr/index.php?op...
The SFBBM highlight is available here:
www.sfbbm.fr/index.php?op...
Reposted
We are recruiting a junior group leader in computational structural biology.
Spread the news!
www.nature.com/naturecareer...
Spread the news!
www.nature.com/naturecareer...
Junior Group Leader Position in Computational Structural Biology - Marseille (Arrondissement), Bouches-du-Rhône (FR) job with AFMB Laboratory (amU/CNRS/INSERM/INRAe) | 12839733
Junior Group Leader position with a focus on applying artificial intelligence (AI) to the field of integrative structural biology.
www.nature.com
May 26, 2025 at 9:05 AM
We are recruiting a junior group leader in computational structural biology.
Spread the news!
www.nature.com/naturecareer...
Spread the news!
www.nature.com/naturecareer...
Reposted
We are happy to release LocScale2.0: a tool for context-aware, confidence-weighted cryoEM map optimisation.
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
May 27, 2025 at 6:42 AM
Wow! Great structures
We are excited to share our collab with @kedrov-lab.bsky.social! Using Cryo-EM❄️ on an amazing sample, we found that YidC is recruited to the back of SecYEG during late-stage substrate insertion —supporting that the "back-of-Sec" route observed in eukaryotes also exists in bacteria 🦠. Check it out👇👇👇
Very special feelings to announce this one... A project that started like 10 years ago is reaching the finish line, ready to shine. In a dream-team with @beckmannlab.bsky.social we solved the long-chased structure of the active membrane protein insertase SecYEG-YidC
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
May 28, 2025 at 3:35 PM
Wow! Great structures
Reposted
We are happy to release LocScale2.0: a tool for context-aware, confidence-weighted cryoEM map optimisation.
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
May 22, 2025 at 10:10 AM
We are happy to release LocScale2.0: a tool for context-aware, confidence-weighted cryoEM map optimisation.
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.
cryotud.github.io/locscale/
Reposted
Offre de thèse disponible dans notre équipe au @mmsb-lyon.bsky.social
Si vous êtes étudiant(e) en Master 2 et intéressé(e) par la génétique bactérienne, microscopie à épifluorescence et biochimie, contactez-nous et postulez à l'offre!
Dossier pour le 13/06
Concours école doctorale E2M2: 8 et 9/07.
Si vous êtes étudiant(e) en Master 2 et intéressé(e) par la génétique bactérienne, microscopie à épifluorescence et biochimie, contactez-nous et postulez à l'offre!
Dossier pour le 13/06
Concours école doctorale E2M2: 8 et 9/07.
Elucider le rôle des messagers secondaires (p)ppGpp et c-di-GMP dans la coordination des réponses bactériennes au stress et à l'adhésion à une surface // Decoding the role of intracellular messengers ...
Comprendre comment les bactéries modulent leur croissance face à des changements environnementaux est essentiel pour développer de nouvelles stratégies de lutte contre les infections. Dans notre labo...
www.abg.asso.fr
May 23, 2025 at 1:35 PM
Offre de thèse disponible dans notre équipe au @mmsb-lyon.bsky.social
Si vous êtes étudiant(e) en Master 2 et intéressé(e) par la génétique bactérienne, microscopie à épifluorescence et biochimie, contactez-nous et postulez à l'offre!
Dossier pour le 13/06
Concours école doctorale E2M2: 8 et 9/07.
Si vous êtes étudiant(e) en Master 2 et intéressé(e) par la génétique bactérienne, microscopie à épifluorescence et biochimie, contactez-nous et postulez à l'offre!
Dossier pour le 13/06
Concours école doctorale E2M2: 8 et 9/07.
Completely agree, these case studies are very useful and well made. Great material!
@structurabio.bsky.social is killing it with these SPA case studies. This one on dealing with preferred orientation is particularly good IMO (as it is a frequently encountered issue)
Case Study: Picking-induced Orientation Bias in HA Trimer (EMPIAR-10096 and -10097) | CryoSPARC Guide
An analysis of the impact of data collection and particle picking techniques on orientation bias, including strategies for improving map quality and isotropy.
guide.cryosparc.com
May 18, 2025 at 11:31 AM
Completely agree, these case studies are very useful and well made. Great material!
Reposted
Due to the situation in the U.S. particularly for non-American scientists, we are exceptionally offering U.S.-based colleagues on line access to the #NMR conference.
If you’re registered, contact us to receive the link.
If not, contact us for registration and details👇nmr2025@conferences-pasteur.org
If you’re registered, contact us to receive the link.
If not, contact us for registration and details👇nmr2025@conferences-pasteur.org
May 16, 2025 at 11:21 PM
Due to the situation in the U.S. particularly for non-American scientists, we are exceptionally offering U.S.-based colleagues on line access to the #NMR conference.
If you’re registered, contact us to receive the link.
If not, contact us for registration and details👇nmr2025@conferences-pasteur.org
If you’re registered, contact us to receive the link.
If not, contact us for registration and details👇nmr2025@conferences-pasteur.org
Reposted
Le MMSB propose une mobilité NOEMI
Rejoignez l'équipe "Ecologie et Évolution Moléculaire des Phages" qui travaille sur les éléments génétiques mobiles et l'immunité bactérienne. Profil Génétique bactérienne, Écologie microbienne et Evolution expérimentale
🤝Contactez-nous pour rejoindre notre unité!
Rejoignez l'équipe "Ecologie et Évolution Moléculaire des Phages" qui travaille sur les éléments génétiques mobiles et l'immunité bactérienne. Profil Génétique bactérienne, Écologie microbienne et Evolution expérimentale
🤝Contactez-nous pour rejoindre notre unité!
MMSB – Molecular Microbiology and Structural Biochemistry
mmsb.cnrs.fr
May 14, 2025 at 8:17 AM
Le MMSB propose une mobilité NOEMI
Rejoignez l'équipe "Ecologie et Évolution Moléculaire des Phages" qui travaille sur les éléments génétiques mobiles et l'immunité bactérienne. Profil Génétique bactérienne, Écologie microbienne et Evolution expérimentale
🤝Contactez-nous pour rejoindre notre unité!
Rejoignez l'équipe "Ecologie et Évolution Moléculaire des Phages" qui travaille sur les éléments génétiques mobiles et l'immunité bactérienne. Profil Génétique bactérienne, Écologie microbienne et Evolution expérimentale
🤝Contactez-nous pour rejoindre notre unité!