Thanks to GACR funding, we can for next 3 years focus on project (20-24155S):
Insight in preferential interactions, bridging, and cononsolvency on PNIPAM by experimental and computational thermodynamics
We are looking for enthusiastic students (Bc/MSc/PhD). We are always happy to present the broader frame, discuss more details of this project, and possible topics for theses.
Our group strengthens. Currently we have 5 Master students, and one graduated Intern! We are happy to have you here. Hope to have a lot of fun in tackling the challenges in Soft Matter. Group webpage
New season of Teochem seminars is here. You can expect a high quality mixture of Czech and foreign speakers The seminars will take place on many Fridays and on few Mondays. We start on Friday, September 20 at 14.30. link
We have just published two works on combined experimental (time-resolved spectroscopy) and theory (ab-initio QM/MD) investigation of electron transfer over large distance (conjugated amino acid sequence) in Azurin.
More details can be found in: ACS Central Science, and J. Phys. Chem. B
In our recent contribution with Berlin & Freiburg colleagues, we provide a generic evidence on sufficient interaction ingredients between biomolecules and salts (effective B2-interaction and mean field electrostatics) to manifest in the direct, or reverse Hofmeister series. More details can be found in the manuscript.
Chudoba R.; Heyda J.; Dzubiella J. Tuning the collapse transition of weakly charged polymers by ion-specific screening and adsorption. Soft Matter, 2018, 14, 9631-9642
We knew that guanidinium cation is an unique species, which desire our attention. Its ability to form cation-cation pairs is manifested in aqueous solutions of guanidinium salts as well as between arginine sidechains in proteins. Such arginine magic was pointed out to lead to an unexpected attraction between polyarginine chains with consequences to the action of arginine-rich cell penetrating peptides.
For more, check our recent review in Accounts of Chemical Research.
Junior independent researcher, Kuhan Chandru, formerly at Earth-Life Science Institute, Tokyo, extended our group. Kuhan is experienced with messy chemistry and inevitable origin of life. We thank EU-Mobility program for his support in 2018-2020.
For more details, see his recent paper:
615 000 CPU hours were granted in 12th IT4I call for our project entitled: “Collapse kinetics of themoresponsive polymer chain and hydration dynamics”. Denis and Vladimir will be investigating how does the PNIPAM chain collapse, and how does the properties of interfacial water changes near the critical temperature.
More details about projects supported in this IT4I call in Ostrava – link.
We have developed a temperature T-dependent coarse-grained Hamiltonian of polyethylene glycol/oxide (PEG/PEO) in aqueous solution, which may be used in implicit-solvent material models in a wide temperature (i.e., solvent quality) range.
Our approach combined bottom-up approach, i.e., large scale atomistic MD simulations, and top-down closure, when explicitly targeting macroscopic experimental properties, such as scaling of polymer chain length and osmotic pressure equation of state.
Happy reading and employing!!! link
First publication in PNAS!
Very thorough joint experimental (NMR, SAXS) & theoretical (umbrella-sampling, MD, mean field modeling) work of a group around Mikael Lund and his collaborators provided strong support on unusual self-association of highly charged poly-arginine chains. Note that like-charged species normally repel each other. This behavior is unique for arginine, and diminishes upon mutation to lysine (another positively charged amino acid). On the other end, purely poly-lysine chains behave as standard polyelectrolytes.
Long poly-arginine segment are found in many cell penetrating peptides, also known as arginine-rich peptides (RRPs), which can spontaneously traverse biological membranes in so called direct mode. Therefore this unusual binding motif may have a potential biological role.
Note that the rare like-charge attraction has its origin already on the level of guanidinium cations. link1, link2, research
The origin of this story goes back to 2012, to Pavel Jungwirth‘s group in Prague, when Mario Vazdar did first MD simulations of many deca-arginine and deca-lysine chains, and we have quantified the observed like-charged association. The motivation was the obsess by guanidinium and arginine systems, and a talk of Robin Curtis (University of Manchester) on his DLS experiments from around 2010.