New Title Alert: LocScale- is an automated tool for physics-informed cryo-EM map optimisation (sharpening/density modification), improving interpretability using electron scattering properties derived from the map or an atomic model.
Learn more here: https://cryotud.github.io/locscale/
Great talk by Tessa Gote at the #LED3Symposium on her doctoral research in the Zach Armstrong group. She talked about inhibitors for sialic acid esterases with potential for combating infectious diseases. Exciting insights into #Biochemistry, #Microbiology and #StructuralBiology.
SBGrid's eLife paper received a citation in May from Joost Snijder from @utrechtuniversity in @eLife Simultaneous polyclonal antibody sequencing and epitope mapping by cryo electron microscopy and mass spectrometry.
New Title Alert: Follow_Relion_Gracefully- a complete dashboard for easy interaction with your cryo-EM data in Relion, now with full #teamtomo support!
Learn more here: https://github.com/dzyla/Follow_Relion_gracefully
New Title Alert: CryoFold- a graphical user interface for the CryoFold method, which integrates several computational techniques (MAINMAST, Targeted Molecular Dynamics, MDFF/ReMDFF, and MELD) to determine protein structures and conformational ensembles from cryo-EM density maps.
Learn more here: https://github.com/SingharoyLab/CryoFold_GUI
New Title Alert: CryoVia- an image analysis toolkit for the quantification of membrane structures from cryo-EM micrographs.
Learn more here: https://github.com/philipp-schoennenbeck/CryoVia
Welcome to @bsky.app, @ccp4mx.bsky.social! Glad to see the #structuralbiology community grow here!
New Title Alert: EMInfo- a deep learning framework for detecting the secondary structures of proteins and the region of nucleic acids in a cryo-EM map.
Learn more here: http://huanglab.phys.hust.edu.cn/EMInfo/
🧩 What happens when we put AlphaFold2’s predictions to the ultimate test—across species and structure types?
🔗 Comprehensive assessment of AlphaFold’s predictions of secondary structure and solvent accessibility at the amino acid-level in eukaryotic, bacterial and archaeal proteins. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.05.047
📚 CSBJ: https://www.csbj.org/
#AlphaFold #Bioinformatics #StructuralBiology #AlphaFold2 #ProteinStructure #ProteinPrediction #AI
Meharry Medical College Ph.D. candidate KeAndreya Morrison's highlight features a publication from the laboratory of Elias Lolis from Yale School of Medicine that examines the immune protein MIF with an allosteric inhibitor, which can halt leukemia cell growth, offering a promising new strategy for treating AML.
Read more here: https://medium.com/sbgrid-community-news/exploring-mif-inhibition-in-acute-myeloid-leukemia-f6aaa184677c
Join us on June 10th for a software webinar featuring Genki Terashi from Purdue University to give a primer on DiffModeler & CryREAD.
DiffModeler & CryoREAD
Genki Terashi, Ph.D.
Tuesday, June 10, 2025 - 12:00pm EDT
Register here: https://buff.ly/XJA4YN7
Caltech doctoral student Vida Robertson highlighted a publication from SBGrid member Yvain Nicolet, at Institut de Biologie Structurale (IBS) Grenoble, in which the authors explore how bacteria make antibiotics.
Read more here: https://medium.com/sbgrid-community-news/how-microbes-make-designer-antibiotics-a16d41cb6de6
For our May member tale we met up with George Phillips from Rice University, who looks back on the many phases of his career and ahead to the space that his second retirement will bring to tinker, around the holistic garden at Rice and with new computational approaches to solve the "phase problem" in crystallography.
New Title Alert: BioEmu- a model that samples from the approximated equilibrium distribution of structures for a protein monomer, given its amino acid sequence.
Learn more here: https://buff.ly/ysdtTaL
30-May-2025
Uncovering a unique light-harvesting structure in marine #algae
Photosystem II–FCPII complex found in a marine alga could shape the future of artificial #photosynthesis
high-resolution analysis of a photosynthetic complex found in , Chrysotila roscoffensis. This marine alga belongs to the #coccolithophore species known for producing calcium carbonate plates and fixing carbon at the ocean surface.
https://www.eurekalert.org/news-releases/1085791 #science #ecology #MarineBiology #structuralBiology
New Title Alert: tomoCPT- is a deep learning based program for enabling centroid prediction of objects in 3D cryo-tomograms.
Learn more here: https://github.com/shahpnmlab/tomocpt
New Title Alert: SIREn- a toolkit for analyzing heterogeneity in 3D volume ensembles generated via cryo-EM. SIREn performs automated detection of structural blocks to allow model-free detection of heterogeneity, and additionally includes a 3D Convolutional Neural Network (CNN) to predict binarization thresholds for 3D density maps.
Learn more here: https://github.com/lkinman/siren
New Title Alert: NuFold- a state-of-the-art method designed for predicting 3D RNA structures, leveraging deep learning for high accuracy and reliability. This tool is particularly useful for biologists and bioinformatics researchers focusing on RNA function and structure.
Learn more here: https://github.com/kiharalab/NuFold
Hi NMR spectroscopy friends,
Apologies for the silent running.
< UPDATE :
Aside from engineering the remaining features in ELEMENTS, we have also been navigating through some opportunities that have come our way.
... more news soon!
: END >
#bioinformatics #biology #biochemistry #biophysics #chemistry #CompChem #metabolomics #NMR #NMRChat #NMROnline #physics #spectroscopy #StructuralBiology
New Title Alert: NMRFx Structure- a tool that can be used to generate and analyze macromolecular structures and predict chemical shifts.
Learn more here: https://nmrfx.org/nmrfx/structure
