Laboratory of Structural Biology and Cell Signaling

2021/12/08:
Our team is growing! Welcome Maartje and Michael! We now have two real experts to expand MS into a second dimension and shoot the protein ions with all electron and laser guns we have. Top-down era of our lab is now making a huge leap forward.
2021/12/06:
Happy news! We received funding from the Czech Science Foundation to expand structural proteomics tools by developing new reagents, enhancing the existing ones and diving into transmembrane proteins.
2021/12/01:
Great success of Jarin and Fiji who have their protein fast-fluoralkylation tricks now published in prestigious J Am Chem Soc. Also thanks for fruitful collaboration - Beier group and CF Plus Chemicals.
2021/11/25:
Highly productive collaboration with Angel Pey led to another publication on mammalian NQO1 flavoproteins. This time on phosphorylation and a specific evolutionary divergent mutation close to it. Available in FEBS Letters. Thanks to EU_FT-ICR_MS H2020 Project for support!
2021/11/04:
Our systematic structural characterization of haptoglobin-hemoglobin interaction resulted in a first paper, Hp-Hb interaction studied by FPOP.
2021/09/23:
Congratulations to Honza (Fiji), now officially PhD in biochemistry!

2021/11/11:
EPIC-XS organizes another free webinar. This time, super exciting, on Top-Down Proteomics, will be on Dec 15, 2021. Check IP web site for details.
2021/10/04:
Call for EPIC-XS proposals was closed on Sep 30. Due to limited number of slots remaining at the individual TNA sites, we expect next call in spring 2022. Check the EPIC TNA site for details/updates.
2020/04/01:
Are you interested in structural mass spectrometry, method development, transcription factors or membrane proteins? We are looking for Bc, MSc, PhD students and post-doc! Inquiries should be addressed to Petr Novak.

Downloads

Software for interpretation of high-resolution MS data obtained after protein chemical cross-linking. The software is free to use. If you are using LinX for your research please cite the related publication.

Download here

This software is part of a project that has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement No 731077P.

HDX-MS related tools for data processing and visualization.
Digestion_metrics - Microsoft Excel macro calculating simple digestion metrics (coverage, average peptide length, redundancy, etc.) Modified supplementary file to publication Kadek A et al Anal Chem. 2014, 86(9):4287-94.
HDXPeptideSplitter - Python script for pre-processing of HDX-MS results before using them in PyMol. Processed data are then loaded through data2bfactor Pymol script written by Robert L. Campbell. This version works with Python version 2.x. For version 3.x and higher use this modified data2bfactor script.