Laboratory of Structural Biology and Cell Signaling

2022/05/19:
This is big. Fantastic collaboration with Moshe and Yoni on cis-prenyltransferase continues with another great outcome. Paper now published in Sci. Adv. reveals how these enzymes synthesize long products via small active site!
2022/02/14:
Happy to help Klara and her team (KH lab) with the work deciphering evolution of early protein-RNA interaction. Paper supported by Terka and The Boss is now in high-ranking Mol. Biol. Evol. journal!
2022/02/09:
Marok's work on FPOP combined with top-down for transcription factor::dsDNA interaction is now published in Anal. Chem.! Very nice complement to our previus HDX and X-linking studies, now with residue level resolution.
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.

2022/04/22:
Are you interested in structural mass spectrometry, method development ad/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.