Harry Danwonno

Structural Biologi.. | Protein Scientist | @BCMGradSchool | @TheCrick |@WACCBIP_UG | @KhrcGhana I @UnivofGh

[WACCBIP @WACCBIP_UG]

The entire University Community is invited to the launch of the Structural & Chemical Biology Laboratory (SCBL) on Thursday, 5th February, 2025, at the Department of Chemistry. The Structural & Chemical Biology Laboratory is an affiliate lab of @WACCBIP_UG.

[Harry Danwonno @atajera]

Join me in supporting Baylor College of Medicine's first-ever giving day! #GiveBIGDay https://t.co/lCdyVKwDKf

[Zhao Wang lab @BCM @zhaowang_BCM]

https://t.co/xJrt5hphlv
Proud to share our work showing XPR1 is a phosphate-permeable channel with strong phosphate- and voltage-dependence. The backstory is wild too—Direct message me if you're curious! #science #ionchannels #XPR1 #BCM

[Harry Danwonno @atajera]

@kiharalab Right, thank you!

[Top Science @isciverse]

Science and writing, thinking and rethinking

[Soni Kaundal @sonik456]

Our recent research from Prasad's lab reveals that human norovirus RdRp forms liquid-liquid phase condensates to drive replication in infected cells. #virology #phaseseparation
@ScienceAdvances @EstesLab_BCM @anish12741503 @vijayalaks14983 @bcmhouston
https://t.co/Ye5YLsH53O

[From the Labs at Baylor College of Medicine @BCMFromtheLabs]

Drs. V Prasad, S Kaundal, @EstesLab_BCM et al have discovered replication hubs for #human #norovirus. @ScienceAdvances @bcmhouston #biomolecularCondensates #enteroids #PositiveRNAvirus @bcm_gihep @BCMCancerCenter @CPRITTexas https://t.co/3oFf4rKxUZ

[Razvan Borza @rborza_]

📢 Make your work FASTER and EASIER!

Use AlphaBridge to analyze your AlphaFold results and receive a clear, easy-to-understand output—even for non-experts.

➡️ Let AlphaBridge help you accelerate your work!

🌐Try it: https://t.co/w4fqySX3Zx
👀Read more: https://t.co/wfEK74sSpo

[biohub @biohub]

The #CZImagingInstitute Kaggle Challenge is now open worldwide! Help accelerate biomedical discovery by developing #ML algorithms to automate the detection of biological objects in 3D images of cells captured by #CryoET https://t.co/rkzYb82bRt

[Ventura's Lab @PPMC_UAB]

Birth of protein folds and functions in the virome | Nature https://t.co/Npqhbol77l

[Max Jaderberg @maxjaderberg]

Excited to share that the AlphaFold 3 model code and weights are now available for academic use.
Looking forward to seeing what new research this unlocks and how the research community builds on AlphaFold 3 for scientific discoveries https://t.co/GKIOGHm317 1/2

[Jeremy Wilusz @JeremyWilusz]

Faculty position in RNA Biology available in our center @bcmhouston. Application deadline is November 30. https://t.co/MnSiUTBssO

[Jude Wells @_judewells]

TED: The Encyclopedia of Domains now published in @ScienceMagazine discovering and annotating 314 MILLION protein domains in the AlphaFold database. joint work of @CATH_Gene3D and @psipred here at UCL.

[Biology+AI Daily @BiologyAIDaily]

Muscle-3D: scalable multiple protein structure alignment

1. Muscle-3D introduces a new approach to scalable multiple structure alignment (MStA), combining sequence representation and alignment techniques from Muscle5, capable of scaling to thousands of protein structures.

2. Unlike traditional sequence-based alignment, Muscle-3D uses structural context to enhance alignment quality, making it effective even for distantly related proteins with weak or undetectable sequence similarity.

3. A novel feature of Muscle-3D is the Reseek “mega-alphabet,” a rich structural representation that captures context beyond simple amino acid sequences.

4. Muscle-3D uses advanced techniques such as posterior decoding pair-HMM, consistency transformations, iterative refinement, and ensemble construction to improve alignment accuracy.

5. Comparative validation on multiple benchmark datasets shows that Muscle-3D scores highly, but metric disagreements highlight the inherently fuzzy nature of structural alignment.

6. A novel measure of local conformation similarity, LDDT-muw, is introduced to better quantify local structural conservation, providing a more balanced assessment of alignments.

7. Muscle-3D is highly scalable, with results demonstrating that it can align thousands of structures, which is challenging for most existing methods.

8. Muscle-3D provides contact map profiles, enabling visualization of inter-residue distance variation, which can be used to identify regions of evolutionary constraint.

9. The authors argue that due to the fuzzy nature of MStA, a universal standard for MStA accuracy is not possible, as different metrics lead to conflicting rankings.

10. Muscle-3D integrates seamlessly with visualization tools like Jalview and Pymol, enhancing user experience for analyzing alignments and structural similarity.

💻Code: https://t.co/tU5yonATAX
📜Paper: https://t.co/g4lAwFp5fT
#ProteinAlignment #Bioinformatics #StructuralBiology #Muscle3D #AI #ProteinDesign #OpenScience

[Simon Duerr @simonduerr]

This is great! @NIAIDNews have launched a collection of public domain illustrations (currently 550 individual icons) https://t.co/qYzIsbr0TH

[Razvan Borza @rborza_]

🚨 Great alternatives to BioRender are now available!!

📢 @NIAIDNews offers a collection of public figures and icons for everyone to use. Check it out at https://t.co/cZFQAf5nTz

[Google DeepMind @GoogleDeepMind]

We’re presenting AlphaProteo: an AI system for designing novel proteins that bind more successfully to target molecules. 🧬

It could help scientists better understand how biological systems function, save time in research, advance drug design and more. 🧵 https://t.co/lx35RvplFr

[Rohit Singh @rohitsingh8080]

De novo protein design is great, but nature has millions of proteins- why not repurpose them?

Introducing Raygun, a new approach to protein design. It allows you to miniaturize, magnify or modify any protein. We synthesized miniaturized variants of eGFP and mCherry! 1/

[310.ai @310ai__]

Diffdock & ESMFold are now 6x & 7x faster!
With 310 Copilot + Nvidia NIMs

Try it for free here
https://t.co/DcqJeTxoHv