What is MemBlob?

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. The membrane environment used for structure determination cannot be resolved at the atomic level, but it produces electron density, which can be utilized to dissect the membrane embedded part of the protein.






We ran our pipline on structures determined by cryo-EM at a resolution better than 4 Å. Structures, corresponding electron density maps, and TMDET XML files were downloaded from RCSB, EMD, and TMDET respectively (July, 2018).


MemBlob database and server for identifying transmembrane regions using cryo-EM maps
Bianka Farkas1,2,3,#, Georgina Csizmadia1,2,#, Eszter Katona1,4, Gábor E. Tusnády5, Tamás Hegedűs1,2,*
1Department of Biophysics and Radiation Biology, Semmelweis University, Budapest, HU,
2MTA-SE Molecular Biophysics Research Group, Hungarian Academy of Sciences, Budapest, HU,
3Faculty of Information Technology and Bionics, Pázmány Péter Catholic University, Budapest, HU,
4University College London, London, UK,
5"Momentum" Membrane Protein Bioinformatics Research Group, Institute of Enzymology, RCNS, Hungarian Academy of Sciences

Bioinformatics, btz539, https://doi.org/10.1093/bioinformatics/btz539

Thanks for the suggestions and critical notes to Hedvig Tordai.