CaverDock: Analysis of Ligand Transport through Protein TunnelsOndřej Vávra from ICRCUnderstanding protein-ligand interactions is crucial for drug design and enzyme engineering. The interaction of protein and small ligand molecule often takes place in protein’s binding or active site. Such functional sites may be buried inside the protein core, and thus transport of a ligand needs to be studied. We present CaverDock tool, implementing a novel method for analysis of transport processes. The method is based on modified molecular docking algorithm of AutoDock Vina. The output is ligands trajectory and energy profile of the transport process.Meet us online every friday morning to explore the portfolio of ELIXIR CZ tools and services at https://global.gotomeeting.com/join/508817845 .Registration is not neededFuture webinars25. 6. at 9:30 PrankWeb.Take a look at the webinar and give us your feedback. Please note that online session will be recorded and may be used on ELIXIR CZ website, social media, in ELIXIR CZ e-publications and any other ELIXIR CZ online materials.
cpPredictor: template based prediction of RNA secondary structuresJosef Pánek from MBU Cpredict is an algorithm for template-based prediction of secondary structures of RNAs. As templates, experimentally identified RNA structures are used. Reliability of
projít na článekIRESs, IRESite and HCVIVdbMartin Pospíšek from PřF UK Our long-term interest in internal ribosome entry sites (IRES) resulted in development of two specialized databases IRESite presenting information about the known experimentally studied IRESs, their s
projít na článekTraveler: visualization of secondary structure of RNA moleculesDavid Hoksza from UKTraveler is a tool for template-based visualization of RNA secondary structure. If a sufficiently close template is available, Traveler is able to generate a layout for eve
projít na článekEnzymeMiner & SoluProt: mining of soluble enzymesJiří Hon from ICRCWe present two integrated bioinformatics tools EnzymeMiner and SoluProt for mining and rational selection of novel soluble enzymes. EnzymeMiner uses one or more enzyme sequences and a
projít na článekSpeaker: Karel Berka from Palacký University OlomoucMOLEonline is an interactive, web-based application for the detection and characterization of channels (pores and tunnels) within biomacromolecular structures. The application enables two modes of calcul
projít na článek