Czech National Centre of the European Research Infrastructure Consortium INSTRUCT ERIC
Czech Infrastructure for Integrative Structural Biology – CIISB
A gateway to realm of structural data for biochemists, biophysicists, molecular biologist, and all scientists whose research benefits from accurate structure determination of biological macromolecules, assemblies, and complex molecular machineries at atomic resolution.
Open access to 10 high-end core facilities and assisted expertise in NMR, X-ray crystallography and crystallization, cryo-electron microscopy and tomography, biophysical characterization of biomolecular interaction, nanobiotechnology, proteomics and structural mass spectrometry.
A distributed infrastructure constituted by Core Facilities of CEITEC (Central European Institute of Technology), located in Brno, and BIOCEV (Biotechnology and Biomedicine Centre), located in Vestec near Prague, Central Bohemia.
The 5th Workshop of Structural Biology in the Helmholtz Association
The workshop will take place at the DKFZ in Heidelberg, from December 17 to December 18, 2019
Postdoc and PhD Positions in Biomolecular NMR spectroscopy - Selenko lab at the Weizmann Institute of Science
Postdoc and PhD positions in biomolecular NMR spectroscopy are available in the Selenko Lab at the Weizmann Institute of Science, Department of Biological Regulation.
PDB-Dev: A Prototype System for Depositing Integrative/Hybrid Structural Models
announced in 2017 contains now 22 officially released structures.
the best of science obtained using CIISB Core Facilities
SCIENCE ADVANCES 2019
Potato virus Y (PVY) belongs to the most economically important pathogens. The collaborative research project of the National Institute of Chemistry (Ljublana, Slovenia) and Cryo-Electron Microscopy Core Facility at CEITEC MU reveals the structure of the PVY coat protein (CP) and the PVY virus like particle at near-atomic resolution. The data show a novel luminal interplay between the extended carboxy-terminal CP regions in the virion and describe RNA-CP interactions important for helical conformation and stability of the virus.
PVY is ranked as fifth in the top 10 most economically important plant viruses and is the most important viral pathogen of potato worldwide. The virus causes potato tuber necrotic ringspot disease, which can result in up to 70% yield reduction, and severely affects other economically important solanaceous crops. Despite extensive availability of data on PVY’s genome and pathogenicity, there has been no high-resolution structuralinformation for this virus. Because of the extreme economic importance of PVY, and the urgent need for structural data to better understand mechanisms of viral infectivity, we have examined in detail the structure of the PVY virion and its CP. We have determined the high-resolution electron cryo-microscopy structures of the PVY virion and a recombinant PVY-based RNA-free virus-like particle (VLP). This provides a new and detailed insight into the RNA-supported helical viral capsid architecture featuring an extended C-terminal region of CP, which is tightly packed in a unique fashion in the virion lumen. In addition, using extensive biochemical, biophysical, and computational characterization, as well as structure-based mutagenesis, we identified regions of CP that affect VLP filament assembly. Moreover, the biological activities of the CP’s N- and C-terminal regions for virus infectivity were explored by measuring the accumulation of viral RNA and systemic movement of selected PVY mutants in plants.
Kežar, A., Kavčič, L., Polák, M., Nováček, J., Gutiérrez-Aguirre, I., Tušek Žnidarič, M., Coll, A., Stare, K., Gruden, K., Ravnikar, M., Pahovnik, D., Žagar, E., Merzel, F., Anderluh,G., and Podobnik, M.: Structural basis for the multitasking nature of the potato virus Y coat protein, Sci. Adv. (2019) 5(7), eaaw3808, DOI: 10.1126/sciadv.aaw3808
In biology, the transport of ions across lipid membranes is crucial and is generally performed by membrane proteins. Deﬁciencies in transport are at the origin of various diseases, such as cystic ﬁbrosis. In this context, synthetic anion carriers incorporated within the lipid bilayer could play a remedial role. They extract ions from one side of the membrane, move across, and release the ions on the other side.
The exchange of chloride and bicarbonate across lipid bilayers is an important biological process. Synthetic molecules can act as mobile carriers for these anions, although most show little selectivity. Here we report on three bambusuril macrocycles functionalized with fluorinated benzyl groups, which are ableto exchange Cl-and HCO3-efficiently. Remarkably, rates for Cl-/NO3- exchangeare two orders of magnitude lower. The higher rates of Cl-/HCO3-transport can be explained by the ability of the bambusurils to complex Cl- and HCO3-simultaneously, facilitating their exchange at the bilayer interface.
Furthermore, the exceptionally high affinity and selectivity of these systemsfor NO3-appear to contribute to the poor Cl-/NO3-exchange. This worknot only demonstrates the importance of anion binding characteristics onanion transport but also the potential relevance of bambusurils for aniontransport applications considering the high rate observed for Cl-/HCO3-exchange.
Valkenier, H., Akrawi, O., Jurcek, P., Sleziakova, K., Lizal, T., Bartik, K. and Sindelar, V.: Fluorinated Bambusurils as Highly Effective and Selective Transmembrane Cl-/HCO3-Antiporters, Chem(2019) 5, 429-444. doi:10.1016/j.chempr.2018.11.008
literature to read, science to follow
In this section, a distinct selection of six highly stimulating research publications and reviews published during past 6 months is presented. It is our hope that links to exciting science, which deserves attention of the structural biology community, will help you to locate gems in the steadily expanding jungle of scientific literature. You are welcome to point out to any paper you found interesting by sending a link or citation to email@example.com. The section is being updated regularly.
Principles for Integrative Structural Biology Studies
Guru of integrative structural biology computation Andrej Sali and Michale P. Rout summarize in the recent Cell Primer Principles for Integrative Structural Biology Studies.
Potential of cryo-EM for high-resolution structural analysis of gap junction channels
The review by Oshima et. al. in Current Opinions in Structural Biology outlines structural biology of gap junction channels utilizing crystallography and single-particle cryo-EM to shed light on the functional mechanisms of cell-cell communication that are essential for multicellular organisms.
Molecular dynamics simulations of macromolecular crystals
The paper of David Case and David Cerutti in WIREs Computational Molecular Science evaluates past fusions of simulations and crystallography and looks ahead to the ways that simulations of crystal structures will enhance structural biology in the future.
Combining Mass Spectrometry (MS) and Nuclear Magnetic Resonance (NMR) Spectroscopy for Integrative Structural Biology of Protein–RNA Complexes
In this publication Fred Allain et.al. reviews recent advances in hybrid structural approaches with a focus on combining MS analysis of cross-linked protein–RNA complexes and NMR spectroscopy.
Quo Vadis Biomolecular NMR Spectroscopy?
In Quo Vadis Biomolecular NMR Spectroscopy? Phil Selenko reviews recent methodological spin-off applications whose developments were stimulated by cellular NMR approaches.
Essay on Biomembrane Structure
Christoph Gerle provides historical outline of how we arrived at our current understanding of biomembranes and the models we use to describe them in Essay on Biomembrane Structure. A selection of direct experimental findings on the nano-scale structure of biomembranes is taken up to discuss their physical nature, and special emphasis is put on the surprising insights that arise from atomic scale descriptions.
Quote of August
“I'm smart enough to know that I'm dumb”Richard Feynman