BvK LaB
@bvklab.bsky.social
Structural biology lab at METU and TARLA, managed by Burak V. Kabasakal #structuralbiology #proteindynamics #crystallography #cryoEM previously at Bristol, Imperial, UCDavis, Hacettepe
https://bvklab.wixsite.com/bvklab
https://bvklab.wixsite.com/bvklab
Pinned
BvK LaB
@bvklab.bsky.social
· Oct 2
Off-target structural insights: ArnA and AcrB in bacterial membrane-protein cryo-EM analysis
This study highlights that cryo-EM can reveal structural information beyond the intended target, and that overexpression of membrane proteins involved in quality control may lead to the co-purificatio...
journals.iucr.org
It is now published at @actacrystd.iucr.org journals.iucr.org/d/issues/202...
Reposted by BvK LaB
Cryo-EM structure of the FtsH periplasmic domain reveals functional dynamics www.biorxiv.org/content/10.1101/2025.10.03.679995v1 #cryoem
October 5, 2025 at 7:10 AM
Cryo-EM structure of the FtsH periplasmic domain reveals functional dynamics www.biorxiv.org/content/10.1101/2025.10.03.679995v1 #cryoem
Reposted by BvK LaB
Off-target structural insights: ArnA and AcrB in bacterial membrane-protein cryo-EM analysis pubmed.ncbi.nlm.nih.gov/40927951/ #cryoem
September 12, 2025 at 2:20 AM
Off-target structural insights: ArnA and AcrB in bacterial membrane-protein cryo-EM analysis pubmed.ncbi.nlm.nih.gov/40927951/ #cryoem
Reposted by BvK LaB
I've also purified ArnA by mistake (who hasn't?). Did mass spec before plunging it though, so never got this nice structure :)
Off-target structural insights: ArnA and AcrB in bacterial membrane-protein cryo-EM analysis pubmed.ncbi.nlm.nih.gov/40927951/ #cryoem
September 12, 2025 at 9:16 AM
I've also purified ArnA by mistake (who hasn't?). Did mass spec before plunging it though, so never got this nice structure :)
Structural biology was on the stage in the beginning of COVID with the spike protein structures on TV screens now the stage is yours mitochondria
Mitochondria finally made the headlines, yay!
Oh wait, ... oh no ....
Oh wait, ... oh no ....
via @acyn.bsky.social
RFK JR: I’m looking at kids as I walk through the airports today...and I see these kids that are just overburdened with mitochondrial challenges, inflammation—you can tell from their faces, movements, and lack of social connection
RFK JR: I’m looking at kids as I walk through the airports today...and I see these kids that are just overburdened with mitochondrial challenges, inflammation—you can tell from their faces, movements, and lack of social connection
August 29, 2025 at 8:28 AM
Structural biology was on the stage in the beginning of COVID with the spike protein structures on TV screens now the stage is yours mitochondria
This morning, I wandered around the medical suppliers and tried to find a piece for our project, then I improvised something with the materials we had on hand-so, if you're solution-oriented and take ownership of your work, you solve it.. I hope you don't lose your excitement for doing science!
August 28, 2025 at 1:18 PM
This morning, I wandered around the medical suppliers and tried to find a piece for our project, then I improvised something with the materials we had on hand-so, if you're solution-oriented and take ownership of your work, you solve it.. I hope you don't lose your excitement for doing science!
Reposted by BvK LaB
Dedicated my talk at the opening evening of Biophysical Society proton meeting to Karen Davies.
Karen's work shaped the field of bioenergetics from solving the horizontal subunit-a of ATP synthase to the structures of photosynthetic CI and more. She was a brilliant scientist, mentor and communicator
Karen's work shaped the field of bioenergetics from solving the horizontal subunit-a of ATP synthase to the structures of photosynthetic CI and more. She was a brilliant scientist, mentor and communicator
August 4, 2025 at 11:55 PM
Dedicated my talk at the opening evening of Biophysical Society proton meeting to Karen Davies.
Karen's work shaped the field of bioenergetics from solving the horizontal subunit-a of ATP synthase to the structures of photosynthetic CI and more. She was a brilliant scientist, mentor and communicator
Karen's work shaped the field of bioenergetics from solving the horizontal subunit-a of ATP synthase to the structures of photosynthetic CI and more. She was a brilliant scientist, mentor and communicator
Just returned from an incredible visit to South Korea as part of our bilateral scientific project between Türkiye and Korea! with Seoul National University, funded by TÜBİTAK. I had the privilege of visiting several leading research institutions, IBS, KAIST, KBSI, and Chungnam National University
August 2, 2025 at 7:51 PM
Just returned from an incredible visit to South Korea as part of our bilateral scientific project between Türkiye and Korea! with Seoul National University, funded by TÜBİTAK. I had the privilege of visiting several leading research institutions, IBS, KAIST, KBSI, and Chungnam National University
BvK LaB group picture 2025 from the traditional Lake Eymir, Ankara walk. This year, two members graduated as MSc and PhD. Two students, one MSc and one PhD, have joined. Two interns have completed their internship. We are excited for the new term full of science!
July 13, 2025 at 12:39 AM
BvK LaB group picture 2025 from the traditional Lake Eymir, Ankara walk. This year, two members graduated as MSc and PhD. Two students, one MSc and one PhD, have joined. Two interns have completed their internship. We are excited for the new term full of science!
Reposted by BvK LaB
Back from the ISDB,
Clearly my presence in the lab was missed!
Clearly my presence in the lab was missed!
June 24, 2025 at 11:03 AM
Back from the ISDB,
Clearly my presence in the lab was missed!
Clearly my presence in the lab was missed!
Reposted by BvK LaB
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
Course website: meetings.embo.org/event/25-bio...
Organizers: myself, @amjjbonvin.bsky.social @bioinfo.se @lindorfflarsen.bsky.social
Location: www.ibg.edu.tr
June 11, 2025 at 8:48 AM
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
Course website: meetings.embo.org/event/25-bio...
Organizers: myself, @amjjbonvin.bsky.social @bioinfo.se @lindorfflarsen.bsky.social
Location: www.ibg.edu.tr
ArnA and AcrB were copurified and structurally resolved within the cryo-EM sample of the overexpressed membrane protein complex, FtsH and YidC. Our study reveals interesting findings and confirms the power of #cryoEM technique.
Off-Target Structural Insights: ArnA and AcrB in Bacterial Membrane Protein Cryo-EM Analysis
Membrane protein quality control in Escherichia coli involves coordinated actions of the AAA+ protease FtsH, the insertase YidC, and the regulatory complex HflKC. These systems maintain proteostasis b...
www.biorxiv.org
June 2, 2025 at 1:10 AM
ArnA and AcrB were copurified and structurally resolved within the cryo-EM sample of the overexpressed membrane protein complex, FtsH and YidC. Our study reveals interesting findings and confirms the power of #cryoEM technique.
In Baltimore, Maryland for #ASMS25 to present our XL-MS studies, explore exciting research in mass spectrometry, and meet great scientists from all over the world.
June 1, 2025 at 8:24 PM
In Baltimore, Maryland for #ASMS25 to present our XL-MS studies, explore exciting research in mass spectrometry, and meet great scientists from all over the world.
Mehmet's first first-author publication! A comprehensive review on YidC, its evolution and structure, membrane protein biosynthesis and quality control
The versatile role of YidC in membrane protein biosynthesis and quality control
Membrane proteins are essential for bacterial survival, facilitating vital processes such as energy production, nutrient transport, and cell wall synt…
www.sciencedirect.com
May 23, 2025 at 12:46 PM
Mehmet's first first-author publication! A comprehensive review on YidC, its evolution and structure, membrane protein biosynthesis and quality control
Nature News @nature.com mentioned about our latest research on FeSII, related to recently published two nitrogenase-FeSII structures
How a small but mighty protein protects a life-sustaining enzyme
Details of how the FeSII protein protects the nitrogenase enzyme.
www.nature.com
May 23, 2025 at 12:41 PM
Nature News @nature.com mentioned about our latest research on FeSII, related to recently published two nitrogenase-FeSII structures
Shethna protein II (FeSII), known as a conformational protector of nitrogenase against oxygen has a swapped domain in the crystal structure. Our study opens a window of new aspect in nitrogenase research
The crystal structure of Shethna protein II (FeSII) from Azotobacter vinelandii suggests a domain swap
The Azotobacter vinelandii FeSII protein forms an oxygen-resistant complex with the nitrogenase MoFe and Fe proteins.
journals.iucr.org
May 23, 2025 at 12:38 PM
Shethna protein II (FeSII), known as a conformational protector of nitrogenase against oxygen has a swapped domain in the crystal structure. Our study opens a window of new aspect in nitrogenase research
Mass spectrometry based structural elucidation of a bacterial mega membrane protein complex involved in quality control. Our study also gives a complete workflow for XL-MS analysis from either purified protein or cell membrane by using 5 different commonly used XL-MS software #xl-ms #proteomics
Structural proteomics of a bacterial mega membrane protein complex: FtsH-HflK-HflC
Recent advances in mass spectrometry (MS) yielding sensitive and accurate measurements along with developments in software tools have enabled the char…
www.sciencedirect.com
May 23, 2025 at 12:31 PM
Mass spectrometry based structural elucidation of a bacterial mega membrane protein complex involved in quality control. Our study also gives a complete workflow for XL-MS analysis from either purified protein or cell membrane by using 5 different commonly used XL-MS software #xl-ms #proteomics
Dynamic lid domain of Chloroflexus aurantiacus Malonyl-CoA reductase controls the reaction #carbonfixation #proteindynamics #proteincrystallography www.sciencedirect.com/science/arti...
May 23, 2025 at 12:25 PM
Dynamic lid domain of Chloroflexus aurantiacus Malonyl-CoA reductase controls the reaction #carbonfixation #proteindynamics #proteincrystallography www.sciencedirect.com/science/arti...
"State of the art and developments in Cryo-EM sample preparation methods for macromolecular machines" described in our book chapter #cryo-em #structuralbiology #membraneproteins #proteinstructure
Sample Preparation for Electron Cryo-Microscopy of Macromolecular Machines
High-resolution structure determination by electron cryo-microscopy underwent a step change in recent years. This now allows study of challenging samples which previously were inaccessible for structu...
link.springer.com
May 23, 2025 at 12:20 PM
"State of the art and developments in Cryo-EM sample preparation methods for macromolecular machines" described in our book chapter #cryo-em #structuralbiology #membraneproteins #proteinstructure
Our book chapter where we comprehensively explain sample preparation methods for proteomics analyses in various matrices
Tissue, serum, and saliva sampling for proteomic analysis
Proteomics is the comprehensive analysis of all the proteins in a biological sample. It is a powerful approach that can be used to discover diagnostic…
www.sciencedirect.com
May 23, 2025 at 12:16 PM
Our book chapter where we comprehensively explain sample preparation methods for proteomics analyses in various matrices
Reposted by BvK LaB
Brings back fond memories of my PhD supervisor complaining about all the money I was wasting on biobeads during nanodisc and proteoliposome reconstitution
Alternative and cost-effective adsorbent for detergent removal in membrane protein solubilization www.researchsquare.c...
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#proteomics #prot-preprint
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#proteomics #prot-preprint
April 21, 2025 at 8:00 AM
Brings back fond memories of my PhD supervisor complaining about all the money I was wasting on biobeads during nanodisc and proteoliposome reconstitution
