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Ezgi Karaca

@ezgikaraca.bsky.social
787 followers 555 following 32 posts

Research Group Leader @ Izmir Biomedicine and Genome Center & DEU, TR | CASP14-15 Assembly Assessor | Computational Structural Biologist

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Ezgi Karaca @ezgikaraca.bsky.social · 20/07/2026
Aaand one more good news for the Bioexcel enthusiasts, preferentially living in Greece or Türkiye!
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Ezgi Karaca @ezgikaraca.bsky.social · 20/07/2026
Our new tool to analyze protein interfaces from MD trajectories is out in JMB, in its Computational Resources Special Issue! 🍀 Our tool, DynaPIN can be used to understand the biology of binding at the atomistic scale, as we have showed in its paper at doi.org/10.1016/j.jm... For more details👇👇👇
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BioExcel CoE @bioexcelcoe.bsky.social · 27/04/2026
Our rescheduled webinar "DynaPIN: a tool for characterising dynamic protein interfaces" is happening tomorrow! 🗓️ 28 April 2026, 15:00 CET ✍️ bioexcel.eu/lgmq @ezgikaraca.bsky.social #webinar #ComputerSimulation #protein #molecularmodeling
bioexcel.eu
Webinar: DynaPIN: A Tool for Characterizing Dynamic Protein Interfaces (2026-04-28)
Date: 28 April 2026 Time: 15:00 CET Registration Abstract Static structural models often fail to capture the dynamic mechanisms of protein interactions. To address this, we introduce DynaPIN, an open...
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Marc Lensink @marclensink.bsky.social · 15/09/2025
Navigating the pre- and post-AlphaFold divide: CAPRI 8th evaluation meeting www.authorea.com/users/348903...
authorea.com
Navigating the Pre- and Post-AlphaFold Divide: CAPRI 8th evaluation meeting, February 12-14, Grenoble, FR
Navigating the Pre- and Post-AlphaFold Divide: CAPRI 8th evaluation meeting, February 12-14, Grenoble, FRAlexandre M.J.J. Bonvin1 and M. F. Lensink21 Bijvoet Centre for Biomolecular Research, Faculty ...
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Ezgi Karaca @ezgikaraca.bsky.social · 27/03/2026
Only a couple of days left to introduce our brand new tool, DynaPIN that @aysebercinb.bsky.social developed (in collaboration with @sacquin-mo.bsky.social & co.) to analyze dynamic/ensemble protein interfaces!
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Ezgi Karaca @ezgikaraca.bsky.social · 24/10/2025
😍😊🍀
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Stephan Hacker @stephanhacker2.bsky.social · 24/10/2025
It was a huge pleasure to host the morning session of #ChemBioPhys2025. A huge thank you to the speakers @gassergroup.bsky.social, Harald Schwalbe, @ezgikaraca.bsky.social, Stephen Kent, Joseph Braymer, Hsuan-Ai Chen, @borisvauzeilles.bsky.social and @romanrenger.bsky.social. I learned a lot!
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Ezgi Karaca @ezgikaraca.bsky.social · 08/10/2025
🥹😍🥰thank you for this beautiful post!
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Ezgi Karaca @ezgikaraca.bsky.social · 06/10/2025
And the legacy continues! 😊 @amjjbonvin.bsky.social @bioinfo.se @lindorfflarsen.bsky.social #EMBOIntegMod25 ! 🍀🧿
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Marc Lensink @marclensink.bsky.social · 29/09/2025
And we're off
The EMBO IntegMod Course has started. All participants received their own mug.
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Ezgi Karaca @ezgikaraca.bsky.social · 28/09/2025
Our pleasure, Marc! Let the #EmboIntegMod25 begin! 🤩
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Ezgi Karaca @ezgikaraca.bsky.social · 27/09/2025
Looking forward hosting you here and listening to your awesome work!! 😍
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Ezgi Karaca @ezgikaraca.bsky.social · 22/08/2025
Main PhD work, as well as the first first-author paper of @aysebercinb.bsky.social , where we investigate how two nearly identical enzymes target different substrates!! For more, please 👇
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Ezgi Karaca @ezgikaraca.bsky.social · 29/07/2025
We just bumped into something very preliminary… but very exciting: AF2.3 and AF3.0 distograms may potentially reproduce MD-like behavior. Until we do further tests, you can reach our early insights at www.biorxiv.org/content/10.1...
biorxiv.org
Exploring the Potential of AlphaFold Distograms for Flexibility Assignment in Cryo-EM Maps
AlphaFold (AF) models are widely used in cryo-EM workflows, but their static structure predictions limit the interpretation of flexible or unresolved regions. To address this, we investigate whether A...
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Ruben Ragg @rubenragg.bsky.social · 01/07/2025
Meet the speakers of our anniversary symposium "Advances in Structural Analysis of Biomolecules: From Subcellular Imaging to Drug Design" cbc-cpc2025.org October 23-24, 2025, Berlin Please like and share! #ChemBioPhys2025
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Ezgi Karaca @ezgikaraca.bsky.social · 17/06/2025
Due to the high level of interest, we have decided to extend the deadline to 10 July. That means there’s still time to apply for our @embo.org course at meetings.embo.org/event/25-bio... !!
meetings.embo.org
Integrative modelling of biomolecular interactions
Experimental structural studies of interactions can be costly, low-throughput, and challenging. Therefore, computational methods aiming to model protein complexes are particularly valuable. The accur…
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Ezgi Karaca @ezgikaraca.bsky.social · 11/06/2025
Only a few days left to apply for our EMBO course with a great lineup of speakers and tutors! Please feel free to RT! Course website: meetings.embo.org/event/25-bio... Organizers: myself, @amjjbonvin.bsky.social @bioinfo.se @lindorfflarsen.bsky.social Location: www.ibg.edu.tr
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Ezgi Karaca @ezgikaraca.bsky.social · 13/05/2025
Also, many thanks to @amjjbonvin.bsky.social & HADDOCK Team for including PROT-ON in their HADDOCK2.4 Antibody-Antigen tutorial! If you are looking for a real case application example of PROT-ON, you can check: www.bonvinlab.org/education/HA...
bonvinlab.org
HADDOCK2.4 basic Antibody - Antigen tutorial including a comparison with AlphaFold
A small tutorial on predicting with HADDOCK a protein-protein complex using interface residues identified from NMR chemical shift perturbation experiments and comparing the results with predictions fr...
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Ezgi Karaca @ezgikaraca.bsky.social · 13/05/2025
1 year ago, we launched PROT-ON to help scientists scan and understand mutations across protein-protein interfaces. Since then, it has been used by researchers from all around the world! If you haven’t tried PROT-ON yet, here is the link to our web resource: proton.tools.ibg.edu.tr:8001/about
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Centre for Structural Systems Biology CSSB @cssbhamburg.bsky.social · 15/04/2025
Today is the last day to register for the CSSB Symposium! www.cssb-hamburg.de/symposium2025 @carobarisch.bsky.social @topf-lab.bsky.social @bosse-lab.bsky.social @landaulabcssb.bsky.social @jankosinski.bsky.social @ezgikaraca.bsky.social @jpoverington.bsky.social @marylynaddo.bsky.social
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Centre for Structural Systems Biology CSSB @cssbhamburg.bsky.social · 31/03/2025
Ezgi Karaca @ezgikaraca.bsky.social from the Izmir Biomedicine and Genome Center will give a talk during the Emerging Themes session of our symposium. Register: cssb-hamburg.de/symposium2025 @carobarisch.bsky.social @bosse-lab.bsky.social @landaulabcssb.bsky.social @jankosinski.bsky.social
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Stephan Hacker @stephanhacker2.bsky.social · 03/03/2025
Very much looking forward to the 25th anniversary symposium of ChemBioChem and ChemPhysChem #CBCCPC2025 in Berlin on October 23rd and 24th, 2025. There is an ever growing list of amazing speakers confirmed for this event. (1/2) #chemsky #ChemBio @chemistryeurope.bsky.social www.cbc-cpc2025.org
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Ezgi Karaca @ezgikaraca.bsky.social · 24/02/2025
I'm so happy to learn that our Turkey-France joint project application with @marclensink.bsky.social has been accepted! This funding will allow us to explore whether we can sample meaningful protein interaction dynamics with MassiveFold. Excited to be "officially" collaborating with Marc again! ♥️
TUBITAK 2509 call - France-Turkey bilateral research program
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Ezgi Karaca @ezgikaraca.bsky.social · 22/02/2025
Inspired by Wallner's AFsample approach, @busrasavas.bsky.social's MinnieFold produced good quality antibody-antigen models even with 95% reduced sampling over CAPRI55 targets. Just accepted in Proteins! Paper: www.biorxiv.org/content/10.1... Github: github.com/CSB-KaracaLa...
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Ezgi Karaca @ezgikaraca.bsky.social · 02/01/2025
We offer an amazing and timely program, spanning integrative modeling, AI-based protein/complex modeling, and biomolecular dynamics. There are also several fellowship options! Looking forward to host this year's fun during 28 September – 03 October 2025 in Izmir 🌴
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Ezgi Karaca @ezgikaraca.bsky.social · 02/01/2025
The legendary EMBO Integrative Modeling Course is back! If you want to be in this picture in the 2025 edition, just go ahead and register at meetings.embo.org/event/25-bio... Organized by myself & @amjjbonvin.bsky.social & @arneelof.bsky.social & @lindorfflarsen.bsky.social
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Alexandre Bonvin @amjjbonvin.bsky.social · 23/11/2024
Today is the #HADDOCK day - lectures and tutorials running hot to melt the snow!
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Ezgi Karaca @ezgikaraca.bsky.social · 13/01/2024
Super proud to have been listed as one of the successful groups in predicting the structure of an antibody-peptide during @capridock.bsky.social's 55th round! This was our first attempt in CAPRI as the Karaca team with @busrasavas.bsky.social @iremylmazbilek.bsky.social @atakanozsan 💪
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