Sara J. Weaver
@sarajweaver.bsky.social
Structural biologist in drug discovery. #CryoEM specialist. #MicroED. X-ray #crystallography. #teamtomo Industry.
Reposted by Sara J. Weaver
Grappling with poorly-resolved ligand binding sites in #cryoEM maps?
Check out our new case study on a peptide ligand-bound GPCR showing how practical tips and features in #CryoSPARC v4.7 improve locally refined map quality and reveal clearer ligand density!
guide.cryosparc.com/processing-d...
Check out our new case study on a peptide ligand-bound GPCR showing how practical tips and features in #CryoSPARC v4.7 improve locally refined map quality and reveal clearer ligand density!
guide.cryosparc.com/processing-d...
April 29, 2025 at 3:22 PM
Grappling with poorly-resolved ligand binding sites in #cryoEM maps?
Check out our new case study on a peptide ligand-bound GPCR showing how practical tips and features in #CryoSPARC v4.7 improve locally refined map quality and reveal clearer ligand density!
guide.cryosparc.com/processing-d...
Check out our new case study on a peptide ligand-bound GPCR showing how practical tips and features in #CryoSPARC v4.7 improve locally refined map quality and reveal clearer ligand density!
guide.cryosparc.com/processing-d...
Reposted by Sara J. Weaver
Our work is the first study to provide structures of several tRNAs before and after the introduction of modifications at specific sites. In detail, we analyzed 4 human tRNA species to decipher structural and stability effects induced by the installation of Ψ at single or multiple sites.
April 30, 2025 at 4:12 AM
Our work is the first study to provide structures of several tRNAs before and after the introduction of modifications at specific sites. In detail, we analyzed 4 human tRNA species to decipher structural and stability effects induced by the installation of Ψ at single or multiple sites.
Reposted by Sara J. Weaver
We used single particle cryo-EM to directly visualize several human tRNAs and analyze the effects of individual tRNA modifications. To our knowledge, the work presents interpretable maps of the smallest asymmetric particles analyzed by single-particle cryo-EM so far.
April 30, 2025 at 4:12 AM
We used single particle cryo-EM to directly visualize several human tRNAs and analyze the effects of individual tRNA modifications. To our knowledge, the work presents interpretable maps of the smallest asymmetric particles analyzed by single-particle cryo-EM so far.
Reposted by Sara J. Weaver
We are very excited about our latest work, which just came out @embojournal.org – www.embopress.org/doi/full/10..... The work @MCB_UJ was driven by Anna Biela and Ting-Yu Lin 林亭妤 in collaboration with @jmbujnicki.bsky.social…a short🧵
Determining the effects of pseudouridine incorporation on human tRNAs | The EMBO Journal
imageimagetRNAs harbour a complex set of modifications which are important for their function.
Here, single particle cryo-EM, biophysics, and computational analyses of the effects
of pseudouridine inc...
www.embopress.org
April 30, 2025 at 4:12 AM
We are very excited about our latest work, which just came out @embojournal.org – www.embopress.org/doi/full/10..... The work @MCB_UJ was driven by Anna Biela and Ting-Yu Lin 林亭妤 in collaboration with @jmbujnicki.bsky.social…a short🧵
Reposted by Sara J. Weaver
Reports of diverse stoichiometries have complicated our understanding of the complex between ALK kinase and its #cytokine ligand ALKAL2. @janfelix.bsky.social @savvideslab.bsky.social &co reanalyze #cryoEM data to clarify the situation @plosbiology.org 🧪 plos.io/4lvRfvu
April 15, 2025 at 1:55 PM
Reports of diverse stoichiometries have complicated our understanding of the complex between ALK kinase and its #cytokine ligand ALKAL2. @janfelix.bsky.social @savvideslab.bsky.social &co reanalyze #cryoEM data to clarify the situation @plosbiology.org 🧪 plos.io/4lvRfvu
Reposted by Sara J. Weaver
Join us at Amgen Structural Biology in SoCal! Work on #xray and #cryoEM.
careers.amgen.com/en/job/thous...
careers.amgen.com/en/job/thous...
Senior Scientist Jobs at Amgen in United States of America
Explore the details of a Senior Scientist career in Thousand Oaks. Live. Win. Thrive. Search and apply for a rewarding new career at Amgen.
careers.amgen.com
February 27, 2025 at 9:53 PM
Join us at Amgen Structural Biology in SoCal! Work on #xray and #cryoEM.
careers.amgen.com/en/job/thous...
careers.amgen.com/en/job/thous...
Reposted by Sara J. Weaver
Fast event-based electron counting for small-molecule structure determination by MicroED pubmed.ncbi.nlm.nih.gov/39982366/ #cryoem
February 22, 2025 at 9:58 PM
Fast event-based electron counting for small-molecule structure determination by MicroED pubmed.ncbi.nlm.nih.gov/39982366/ #cryoem
Structural Insight Into the SKP1-CUL1-FBXO3-RBX1 Complex pubmed.ncbi.nlm.nih.gov/39921442/ #cryoem
February 13, 2025 at 4:37 AM
Reposted by Sara J. Weaver
Niko Vlahakis et al.: Accounting for electron-beam-induced warping of molecular nanocrystals in MicroED structure determination ##CryoEM##MicroED##Nanocrystals@ucla...##IUCrhttps://journals.iucr.org/paper?S2052252524012132
Accounting for electron-beam-induced warping of molecular nanocrystals in MicroED structure determination
Here we identify and characterize the warping of molecular crystal lattices induced by electron beam exposure during microcrystal electron diffraction (MicroED/3DED) data collection. We find changes to consensus crystal lattice orientation that are often dramatic, and appear ubiquitous in small organic molecule crystals. This evidence highlights the relevance of crystal bending or warping as a consequence of radiation-induced damage on molecular specimens, and points to it as a fundamental source of error in MicroED/3DED data collection and structure determination.
journals.iucr.org
February 11, 2025 at 1:00 AM
Niko Vlahakis et al.: Accounting for electron-beam-induced warping of molecular nanocrystals in MicroED structure determination ##CryoEM##MicroED##Nanocrystals@ucla...##IUCrhttps://journals.iucr.org/paper?S2052252524012132
Reposted by Sara J. Weaver
Interested in #CryoEM structure refinement?
Then this #webinar is for you: "Cryo-EM structure refinement with density-guided simulations in #GROMACS"
🗓️ 4 March 2025, 15:00 CET
Registration & further info ➡️ bit.ly/41b6L7W
Then this #webinar is for you: "Cryo-EM structure refinement with density-guided simulations in #GROMACS"
🗓️ 4 March 2025, 15:00 CET
Registration & further info ➡️ bit.ly/41b6L7W
February 11, 2025 at 9:07 AM
Interested in #CryoEM structure refinement?
Then this #webinar is for you: "Cryo-EM structure refinement with density-guided simulations in #GROMACS"
🗓️ 4 March 2025, 15:00 CET
Registration & further info ➡️ bit.ly/41b6L7W
Then this #webinar is for you: "Cryo-EM structure refinement with density-guided simulations in #GROMACS"
🗓️ 4 March 2025, 15:00 CET
Registration & further info ➡️ bit.ly/41b6L7W
Reposted by Sara J. Weaver
CryoEM structure of ALK2:BMP6 reveals distinct mechanisms that allow ALK2 to interact with both BMP and Activin ligands https://www.biorxiv.org/content/10.1101/2025.02.07.637115v1
February 11, 2025 at 11:56 AM
Reposted by Sara J. Weaver
Mystery Protein Challenge Calling all structural biology enthusiasts and #cryoEM aficionados!
Can you identify the protein shrouded in this 2D class average?
Hint:
This protein plays a vital role in the respiratory chain.
Can you identify the protein shrouded in this 2D class average?
Hint:
This protein plays a vital role in the respiratory chain.
February 11, 2025 at 1:49 PM
Mystery Protein Challenge Calling all structural biology enthusiasts and #cryoEM aficionados!
Can you identify the protein shrouded in this 2D class average?
Hint:
This protein plays a vital role in the respiratory chain.
Can you identify the protein shrouded in this 2D class average?
Hint:
This protein plays a vital role in the respiratory chain.
Reposted by Sara J. Weaver
Are you doing cell #biology? Then, let me guess, you likely stained #actin!
Our @jcb.org article reveals the structure of the popular actin probe F-tractin in complex with F-actin and introduces an optimized version for better imaging! A thread! 👀👇
rupress.org/jcb/article/...
Our @jcb.org article reveals the structure of the popular actin probe F-tractin in complex with F-actin and introduces an optimized version for better imaging! A thread! 👀👇
rupress.org/jcb/article/...
Structure of the F-tractin–F-actin complex | Journal of Cell Biology | Rockefeller University Press
This study reveals the structure of F-tractin, a widely used peptide for visualizing the actin cytoskeleton, and introduces an optimized version that minim
rupress.org
February 11, 2025 at 5:38 PM
Are you doing cell #biology? Then, let me guess, you likely stained #actin!
Our @jcb.org article reveals the structure of the popular actin probe F-tractin in complex with F-actin and introduces an optimized version for better imaging! A thread! 👀👇
rupress.org/jcb/article/...
Our @jcb.org article reveals the structure of the popular actin probe F-tractin in complex with F-actin and introduces an optimized version for better imaging! A thread! 👀👇
rupress.org/jcb/article/...
Reposted by Sara J. Weaver
Accounting for electron-beam-induced warping of molecular nanocrystals in MicroED structure determination pubmed.ncbi.nlm.nih.gov/39927752/ #cryoem
February 11, 2025 at 11:30 PM
Accounting for electron-beam-induced warping of molecular nanocrystals in MicroED structure determination pubmed.ncbi.nlm.nih.gov/39927752/ #cryoem
Reposted by Sara J. Weaver
(BioRxiv All) CryoEM-enabled visual proteomics reveals de novo structures of oligomeric protein complexes from Azotobacter vinelandii: Single particle cryoelectron microscopy (cryoEM) and cryoelectron tomography (cryoET) are powerful methods for unveiling… http://dlvr.it/THnVMD #BioRxiv #MassSpecRSS
February 5, 2025 at 4:03 AM
(BioRxiv All) CryoEM-enabled visual proteomics reveals de novo structures of oligomeric protein complexes from Azotobacter vinelandii: Single particle cryoelectron microscopy (cryoEM) and cryoelectron tomography (cryoET) are powerful methods for unveiling… http://dlvr.it/THnVMD #BioRxiv #MassSpecRSS
Reposted by Sara J. Weaver
Complex Water Networks Visualized through 2.2-2.3 A Cryogenic Electron Microscopy of RNA pubmed.ncbi.nlm.nih.gov/39896454/ #cryoem
February 5, 2025 at 5:44 AM
Complex Water Networks Visualized through 2.2-2.3 A Cryogenic Electron Microscopy of RNA pubmed.ncbi.nlm.nih.gov/39896454/ #cryoem
Reposted by Sara J. Weaver
- identifies crucial contacts; very useful for selecting mutagenesis targets
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
February 6, 2025 at 10:07 AM
- identifies crucial contacts; very useful for selecting mutagenesis targets
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
Reposted by Sara J. Weaver
I’m happy to share gapTrick, an AlphaFold2-based tool for characterising protein-protein complexes
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
gapTrick - Structural characterisation of protein-protein interactions using AlphaFold with multimeric templates
The structural characterisation of protein-protein interactions is a key step in understanding the functions of living cells. Models of protein complexes provide important insights into interaction me...
www.biorxiv.org
February 6, 2025 at 10:07 AM
I’m happy to share gapTrick, an AlphaFold2-based tool for characterising protein-protein complexes
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Sara J. Weaver
Are PDB models biased in terms of how well they explain the underlying experimental data and are modeled?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Modeling Bias Toward Binding Sites in PDB Structural Models
The protein data bank (PDB) is one of the richest databases in biology. The structural models deposited have provided insights into protein folds, relationships to evolution, energy functions of struc...
www.biorxiv.org
December 16, 2024 at 3:14 PM
Are PDB models biased in terms of how well they explain the underlying experimental data and are modeled?
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Sara J. Weaver
Our findings emphasize how we use PDB models. It is critical to understand that PDB models are just that, models. They do not fully explain the underlying experimental data, have nuances in how they are representing the data, and as we show, can vary in how well the underlying data is explained.
December 16, 2024 at 3:14 PM
Our findings emphasize how we use PDB models. It is critical to understand that PDB models are just that, models. They do not fully explain the underlying experimental data, have nuances in how they are representing the data, and as we show, can vary in how well the underlying data is explained.
Reposted by Sara J. Weaver
Casual reminder that what many consider 'information' from #crystallography is actually a model. That is why structure factors must *always* be published, so that reviewers and anyone can see what lies behind the model. Without them, crystal structures are nothing more than 'pictures' in 3D.
November 30, 2024 at 11:25 AM
Casual reminder that what many consider 'information' from #crystallography is actually a model. That is why structure factors must *always* be published, so that reviewers and anyone can see what lies behind the model. Without them, crystal structures are nothing more than 'pictures' in 3D.
Reposted by Sara J. Weaver
Following a suggestion from @benecal.bsky.social I will refer to these threads as "skeetorials" and will use this gif logo.
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n
a cartoon of homer simpson holding a card
ALT: a cartoon of homer simpson holding a card
media.tenor.com
November 23, 2024 at 1:05 PM
Following a suggestion from @benecal.bsky.social I will refer to these threads as "skeetorials" and will use this gif logo.
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n
Today's skeetorial is about the NIH Director's New Innovator Award with three different heroes (all in government).
1/n