Laboratory of Structural Biology and Cell Signaling

2019/11/12:
TNA access under EU_FT-ICR_MS H2020 Project gave rise to this nice paper on NQO1 dynamics. Collaboration with Angel L. Pey from the University of Granada, Spain.
2019/11/08:
Our collaboration with RECAMO team resulted in paper HSPA1A conformational mutants reveal a conserved structural unit in Hsp70 proteins. which is now available in BBA General Subjects.
Enjoy free author's access until Dec 27 (using the hyperlink above)!
2019/10/28:
Petr Novak joined the Editorial Board of Biomolecules.
2019/10/10:
Joint paper with Volf's lab showing identification of blood sources of hematophagous arthropods is now in PLOS Neglected Tropical Diseases..
2019/10/04:
Our new publication combining ambient ion landing of proteases with structural biology is now in Catalyst.
2019/09/27:
The EPIC-XS proposal submission system is now online. Proposal can be submitted here.

2019/11/12:
We are looking for post-doc and PhD to join our team and work on various projects using structural mass spectrometry! Inquiries should be addressed to Petr Novak.
2019/03/27:
We are part of another Horizon 2020 project EPIC-XS (reg. no 823839) focused on the cutting edge proteomic techniques. This project provides Trans-National Access and also focuses on the development of the techniques.
2018/01/03:
Our lab is a part of Horizon 2020 project EU FT-ICR MS (reg. no 731077). Through this project you can access our expertise as well as other participating FT-ICR labs. Check Trans-National Acess web section for more details. Also, various FT-ICR focused courses and schools are organized by the labs participating in the project.
2017/12/20:
Bachelor and master theses are available in the lab. Areas of structrual biology, cutting edge mass spectrometry and cell signalling are awaiting new students. Check the tab Teaching.

Downloads

Software for interpretation of high-resolution MS data obtained after protein chemical cross-linking

The software is free to use, however the download is password protected. For access please contact Zdenek Kukacka. If you are using LinX for your research please consider to cite our work.

Download here

DeutEx - Software for interpretation of HDX-MS data will be available here.

The software is free to use, however is distributed upon signing of Software Transfer Agreement. The download is password protected. For access please contact Petr Man. If you are using these tools for your research please consider to cite our work.

Other HDX-MS related tools for data processing and visualization are below.
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 preporcesing of HDX-MS results before using them in PyMol. Processed data are then used by 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.

Here you can find various 3D printed things, mostly generated by Dan Kavan. Fell free to use them! We will always provide FreeCAD files together with *.stl and some basic comments.

Our passion in 3D printing is strongly supported by a collaboration with the TRILAB company.