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Reposted by TJ McCorvie

Mark Peifer (He, him) @peiferlabunc.bsky.social · 18h

The six faculty positions open at UNC Biology also include 2 openings for Teaching Assistant Professors or Teaching Associate Professors. We seek instructors with expertise from any area of biology 1/n
unc.peopleadmin.com/postings/307...

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TJ McCorvie @allostericstate.bsky.social · 20h

There are some restrictions in what can be deposited but researchers are free to deposit what they like. I think any limitations on that would need to be discussed and agreed upon by the cryoEM community.

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TJ McCorvie @allostericstate.bsky.social · 21h

Seeing these projections and the corrected FSC curve (purple) cutting abruptly below a FSC of zero should be a warning sign to someone with cryo-EM experience

Projections of EMD-42462 from CryoSPARC, the software used by the authors to refine their data and produced this resulting map.

The FSC curve of EMD-42462 from CryoSPARC calculated using the supplied half maps. The corrected (purple) curve cuts below a FSC of zero which is indicative of issues such as a tight mask or when there is badly aligning particles and junk in your particle stack.

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TJ McCorvie @allostericstate.bsky.social · 21h

Yikes! In this paper the AlphaFold model of human plasminogen (PDB-8uq6) has been refined into noise (EMD-42462) using Phenix & ISOLDE. For some reason the authors even interpret side-chain interactions:
#cryoEM

Image from the EMD entry EMD-42462 for human plasminogen bound to streptococcal surface enolase. Projections of the map are shown demonstrating no protein features and radial streaks due to overfitting.

EMD-424262 and PDB-8UQ6 opened in ChimeraX. Though the map is stated to be of Human Plasminogen bound to streptococcal surface enolase the authors have modelled only plasminogen in their PDB. The map shows radial streak at the surface indicative of overfitting and no clear density in the centre of the map corresponds to the model.

Figure 5 from the paper describing side chain interactions of human plasminogen from the PDB 8uq6.

Image showing the model to map FSC curve from Phenix which is the software used by the authors to real space refine their PDB into their cryo-EM map. The model to map FSC curve is a flat line showing no correlation exists between the cryo-EM map EMD-42462 and the PDB 8uq6.

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Trish Greenhalgh @trishgreenhalgh.bsky.social · 1d

Well done Shafaq Aftab. When a reviewer stole her work and published it under his own name, she fought for a YEAR to get the journal to retract the paper. Just wondering why it took Wiley a YEAR to do this. 🧪 #academicsky

retractionwatch.com/2025/10/03/w...

Wiley retracts study stolen by reviewer, following Retraction Watch coverage

A Wiley journal has retracted a paper more than a year after a researcher reported the work was hers and had been stolen by a reviewer for another journal. As we reported in July, Shafaq Aftab, now…

retractionwatch.com

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Healthcare-Global @healthcare-global.bsky.social · 2d

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Institute of Science and Technology Austria (ISTA) @istaresearch.bsky.social · 2d

Join us for the Austrian Cryo-EM Symposium from Nov 11–12 at ISTA! Top speakers, cutting-edge cryo-EM, and a chance to explore Vienna & the ISTA campus. Register now 👉 cryoem-symposium.pages.ist.ac.at/registration/

#cryoEM

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TJ McCorvie @allostericstate.bsky.social · 3d

a man with a beard and long blonde hair is holding a sword in a forest .

ALT: a man with a beard and long blonde hair is holding a sword in a forest .

media.tenor.com

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Jörg Vogel @jorg-vogel-lab.bsky.social · 4d

Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.

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Alejandro Montenegro @aemonten.bsky.social · 3d

It's important to foster a good lab culture

www.cell.com/chem/fulltex...

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Roger Castells @rcastellsg.bsky.social · 7d

We’re looking for an enthusiastic postdoc to join our team. 😊

The project focuses on protein design and cryo-EM applied to cancer research. 🔬🧪

The position is fully funded for 3 years.

Please share 🙏

Job description and application details (deadline: October 11th): www.cnio.es/en/empleo/po...

Postdoctoral Research Assistant for the Biomolecular Design and Structural Nanomedicine Group

DescriptionWe are looking for a Postdoctoral Researcher to join Roger Castells-Graells’ lab at the Spanish National Cancer Research Centre (CNIO). The successful candidate will work on innovative biom...

www.cnio.es

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Jan-Hannes Schaefer @jhschaef.bsky.social · 8d

Helical Reconstruction of Amyloids in cryoSPARC?
We present guidelines, limitations & future perspectives for processing amyloids in cryoSPARC @structurabio.bsky.social.
Great collaboration of the Kelly Lab and @landerlab.bsky.social #cryoEM #amyloid www.biorxiv.org/content/10.1...

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John Innes Centre @johninnescentre.bsky.social · 9d

Shortlisted candidates will be invited to give a seminar at the Fellows Conference, which will be held on 10 March 2026.

Candidates who win Fellowships will be offered a Tenure Track Group Leader position from the outset, initially for 5 years.

Find out more: www.jic.ac.uk/training-car...

Independent Research Fellowships Leading to Tenured Faculty Positions | John Innes Centre

The John Innes Centre (JIC), is a world leading centre of excellence in plant and microbial sciences based on the Norwich Research Park, UK. We are inviting applications from outstanding researchers…

www.jic.ac.uk

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TJ McCorvie @allostericstate.bsky.social · 10d

🥳🎉

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Augustinas Silale @augustsilale.bsky.social · 11d

Our paper on the Bacteroidota BAM complex is out in @natmicrobiol.nature.com! With @madejmar.bsky.social

We found that BAM in Bacteroides and Porphyromonas gingivalis has a distinct architecture from BAM in Proteobacteria.

doi.org/10.1038/s415...

Structure of a distinct β-barrel assembly machinery complex in the Bacteroidota - Nature Microbiology

Structural and functional characterization of the β-barrel assembly machinery complex in Bacteroidota reveals a distinct, seven-component complex with a large extracellular domain that may enable β-barrel–surface lipoprotein complex assembly.

doi.org

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Dr Rachel Clarke @drrachelclarke.com · 11d

Here I am in 2020 in the flimsiest, most pitful PPE - like so many other NHS staff, some of whom died from the Covid they caught in their hospitals.

Tory peer Michelle Mone - who today lost her legal case & must repay the govt £122m - dares to claim she’s been ‘scapegoated’.

What, Michelle? 🧵

Rachel wearing very flimsy looking apron, mask and visor in NHS setting

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Alexey Amunts @amunts.bsky.social · 12d

Today, @rcsbpdb.bsky.social introduces Q-score in EM validation reports. Q-score assesses model-map fit. A new percentile slider will compare an entry’s average Q-score to the full archive and a resolution-matched subset. This would help judge whether the fit is typical for the reported resolution.

Introducing the first 3DEM Model-Map percentile slider to the wwPDB validation report

Introducing the latest wwPDB Percentile slider based on the Q-score model-map validation metric

www.rcsb.org

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Biozentrum, University of Basel @biozentrum.unibas.ch · 13d

Assistant/Associate Professor in Structural Biology, Biophysics or Biological Imaging

www.biozentrum.unibas.ch/open-positio...

#biozentrum #University #Basel #Professor #Structural #Biology #Biophysics #Biological #Imaging

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TJ McCorvie @allostericstate.bsky.social · 13d

It’s apoferritin being collected on a Tundra.

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TJ McCorvie @allostericstate.bsky.social · 13d

An image of a micrograph of some Apoferritin

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David A Muller @davidamuller.bsky.social · 19d

#cryoEM 🧪⚛️ Lena’s paper on imaging thick biological sections with STEM is finally published! We started this work almost 10 years ago. After Lena passed in 2023, I spent much of my sabbatical working with Yue and Steve to wrap this up. Also learned a lot about TEM vs STEM dose efficiency

Nature Methods @natmethods.nature.com · 19d

Tilt-corrected bright-field scanning transmission electron microscopy (tcBF-STEM) offers enhanced contrast and dose efficiency for cryo-EM in thick biological specimens.

www.nature.com/articles/s41...

Dose-efficient cryo-electron microscopy for thick samples using tilt- corrected scanning transmission electron microscopy - Nature Methods

Tilt-corrected bright-field scanning transmission electron microscopy offers enhanced cryogenic electron microscopy contrast and substantial improvement in dose efficiency for thick samples such as bacterial cells and large organelles, while still being able to perform single-particle analysis.

www.nature.com

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TJ McCorvie @allostericstate.bsky.social · 15d

I threw the map and model into Phenix, which the authors state that they used to validate their modelling. They also state there is good overlap between the density and their model.....

A screenshot from the materials and methods of https://doi.org/10.1126/sciadv.adx7829. It states that "The final model was validated by PHENIX" and "....with a high density to model overlap."

Screen shot from Phenix validation for EMD-49649 and its atomic model PDB 9nqd. It shows the cross-correlation scores of the model vs the cryo-EM map (data) which are low values.

Screen shot from Phenix validation for EMD-49649 and its atomic model PDB 9nqd. It shows the map to model FSC curve. There is no correlation above a level of 0.5 but Phenix suggests a model resolution of 6.0 angstroms. There is some correlation at lower resolutions.

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Lori Passmore @lapassmore.bsky.social · 15d

We have an open post-doc position in my group to study mRNA cleavage and polyadenylation using biochemical reconstitution and cryoEM.

Please get in touch if you are interested in joining this amazing team! 🔬🧬🤩
#RNA #cryoEM

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Sjors Scheres @sjorsscheres.bsky.social · 17d

I feel some responsibility, as we develop the software. But helical reconstruction is prone to getting stuck in local minima, and unfortunately still requires a lot of self-criticism. The most important one: if you don't see expected features in the map, don't trust it!

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