| URL: | http://memblob.hegelab.org |
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| Description: | MemBlob implements the first algorithm ever to determine the membrane boundaries of transmembrane proteins based on a larger set of experimental data, namely electron densities. |
| Year founded: | 2019 |
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Accessible
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| Country/Region: | Hungary |
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| University/Institution: | Semmelweis University |
| Address: | Membrane Research Group, Hungarian Academy of Sciences Department of Biophysics and Radiation Biology, Semmelweis University Tűzoltó utca 37-47. 1094 Budapest, HUNGARY |
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| Country/Region: | Hungary |
| Contact name (PI/Team): | Tamás Hegedűs |
| Contact email (PI/Helpdesk): | tamas@hegelab.org |
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MemBlob database and server for identifying transmembrane regions using cryo-EM maps. [PMID: 31290936]
The identification of transmembrane helices in transmembrane proteins is crucial, not only to understand their mechanism of action, but also to develop new therapies. While experimental data on the boundaries of membrane-embedded regions is sparse, this information is present in cryo-electron microscopy (cryo-EM) density maps and it has not been utilized yet for determining membrane regions. We developed a computational pipeline, where the inputs of a cryo-EM map, the corresponding atomistic structure, and the potential bilayer orientation determined by TMDET algorithm of a given protein result in an output defining the residues assigned to the bulk water phase, lipid interface, and the lipid hydrophobic core. Based on this method, we built a database involving published cryo-EM protein structures and a server to be able to compute this data for newly obtained structures. |