New Title Alert: Protenix- a trainable PyTorch reproduction of AlphaFold 3.
Learn more here: https://github.com/bytedance/Protenix
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#structuralbiology
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New Title Alert: smap- a tool for detecting unlabeled macromolecules in 2D Cryo-EM images of cells that uses high-resolution template matching.
Learn more here: https://github.com/jpr-smap/smap_v2.1
New Title Alert: warp-tm-vis- a tool to visualize template matching results from Warp.
Learn more here: https://github.com/warpem/warp-tm-vis
Job - Alert 
Biozentrum PhD Fellowships – Summer Call 2025
Deadline: 2025-05-18
Location: Switzerland, Basel
What determines the folding and stability of protein structures? In his fourth lecture, Dr. Ali Hassanali from the Abdus Salam International Centre for Theoretical Physics (ICTP) explores the intricate world of protein secondary structures, focusing specifically on alpha helices and beta sheets. Dr. Hassanali explains how these structures are stabilized through a variety of interactions, including hydrogen bonding and electrostatic effects, and the critical role of dihedral angles as illustrated by the Ramachandran plot.
This lecture also highlights the essential contributions of cysteine in forming disulfide bonds, which enhance protein stability in challenging environments. By examining the interplay of molecular interactions, Dr. Hassanali provides insights into the architectural and functional significance of these secondary structures as well as their evolutionary adaptations.
Join us for this #OpenAccess lecture and engage in discussions with Dr. Hassanali himself and other members of the Enabla community: https://enabla.com/pub/606/about
New Presidential executive order on proteins:
All amino acids now to be right w̶i̶n̶g̶ handed.
Leftist amino acids to be outlawed.
(Also, Z-DNA is deemed to be Communist, and is prohibited.)
Trans- and cis- peptide bonds to be banned.
Non-binary amino acid Glycine to be banned.
Proline is not a real amino acid and will be banned immediately.
Phenylalanine looks and sounds a bit like Fentanyl, banned immediately.
https://youtube.com/watch?v=YnAA1YBT0tQ&si=he39R0Btb3Yhv8D8
A molecular atlas revealing the location and structural detail of #mitochondria using #CryoTomography. Beautiful insight into the positioning of the #ATP synthesase machines and how the energy formation supercomplexes are placed.
youtube.com- YouTubeEnjoy the videos and music you love, upload original content, and share it all with friends, family, and the world on YouTube.
26-Mar-2025
Remember #ebola?
Zooming in on the #structure of the still lethal #virus
https://www.eurekalert.org/news-releases/1078261 #science #structuralBiology #protein #capsid
EurekAlert!Remember ebola?Kyoto, Japan -- Six years before the start of the COVID-19 pandemic, an Ebola outbreak in West Africa had people fearing the possibility of a global outbreak. This was the first time many had ever heard of the virus, but since it was first identified in 1976, there have actually been more than 20 serious Ebola incidents. Thankfully, none of them had the global reach of the coronavirus.
Ebola has not been eradicated, however. This deadly virus, which causes severe hemorrhagic fever in humans and has a fatality rate of about 50%, is still at large and could thus still cause a major outbreak, unless further research finds an effective solution.
A major challenge lies in the virus' structure and regulatory mechanisms, which have remained largely unclear. In particular, scientists have long struggled to fully understand its nucleocapsid, the protein shell that plays an important role in genome replication and transcription.
That list of structural biology software that the US has banned, in full:
DEIALS. @graemewinter
Resolve Prime & Switch (for phase BIAS)
Resolve (for hand DISCRIMINATION)
AUSPEX - Ice ring detection and EXCLUSION
Molprobity - detection of CIS-peptide bonds.
Anything that detects systematic absences.
Molecular animations reveal DNA's unzipping mechanism: Implications for viral and cancer treatments
https://www.sciencedaily.com/releases/2025/03/250320144758.htm
https://le.ac.uk/news/2025/march/dna-helix-microscopy-cancer
* scientists captured 1st detailed 'molecular movie' showing DNA being unzipped at atomic level
* reveals how cells begin crucial process of copying their genetic material
Structural dynamics of DNA unwinding by a replicative helicase
https://www.nature.com/articles/s41586-025-08766-w#Sec25
ScienceDailyBreakthrough molecular movie reveals DNA's unzipping mechanism with implications for viral and cancer treatmentsScientists have captured the first detailed 'molecular movie' showing DNA being unzipped at the atomic level -- revealing how cells begin the crucial process of copying their genetic material.
Since announcing ELEMENTS - v1.00 // REUBEN, we've experienced increasing interest in our software and business.
Thank you 
FYI: We're fully booked with meetings and engineering time for the next few weeks, but your messages are always welcome and replied to.
️
️ Our project for the SHADOC 
doctoral program has been selected. If you are interested to do an international #PhD in structural virology @afmblab.bsky.social , the #HellenicPasteurInstitute and #SynchrotronSoleil please visit our proposal : https://schadoc.univ-amu.fr/en/call-candidates/health-well-being/garcom
For application procedure please read carefully : https://schadoc.univ-amu.fr/en/call-candidates Call for candidates are open between March 10th and april 21st.
@strucbio #StructuralBiology #virology #CryoEM #SXT
schadoc.univ-amu.frGARCOM | SCHADOC
Productive times, NMR spectroscopy friends!
Simon is continuing to engineer and vigorously test ELEMENTS - v1.00 // REUBEN, so that we have a solid NMR software platform.
We're also looking forward to working in partnership with some leading names in the NMR field, too!
The authors of this paper reversed the amino acid sequence of a nanobody and apparently expected it to function like the forward sequence.
Yeah, no, that's not how proteins work.
#Science @Strucbio #StructuralBiology
https://pubpeer.com/publications/BB01ACDF81B4854C50ADF3C6B4DBBC
pubpeer.comPubPeer - Nuclear lamina strain states revealed by intermolecular forc...There are comments on PubPeer for publication: Nuclear lamina strain states revealed by intermolecular force biosensor (2023)
"You're on to a winner!"
Now, this is what you call confidence building feedback concerning our software and business, NMR spectroscopy friends!
... and best of all, it was from a CTO, too!
New Title Alert: LucaProt- a novel deep learning framework that incorporates protein amino acid sequence and structural information to predict protein function.
Learn more here: https://github.com/alibaba/LucaProt
Thank you for the responses regarding ELEMENTS - v1.00 // REUBEN.
To confirm, when released, it will contain 8 ELEMENTS, highlighting what we can deliver as an NMR software provider.
We will shortly begin promoting ELEMENTS, detailing the features available for FREE!
Get your data out now! 
BMC has a special edition on “The Extracellular Matrix,” and I’m honoured to guest edit. We’re accepting manuscripts on all aspects of ECM, but if you know my background, you’ll know I’m especially excited about structural data and collagens 
.
BMC has a solid JIF and welcomes all scientifically valid studies—so write up your story now and submit!
DM me if you have questions or check out https://www.biomedcentral.com/collections/ECM
www.biomedcentral.comCall for papers - The Extracellular Matrix
Exciting times, NMR spectroscopy friends!
The last few weeks have seen some serious momentum, which is achieving results.
Earlier, we presented the first rough cut of ELEMENTS - v1.00 // REUBEN.
>> 8 ELEMENTS!
The response was enthusiastic.
Stay tuned... 