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An important aspect of transmembrane protein structure is their exact position within the lipid bilayer, a feature hard to investigate experimentally at the atomic level. Here we describe MemBlob, a novel approach utilizing difference electron density maps obtained by cryo-EM studies of transmembrane proteins. The idea behind is that the nonprotein part of such maps carries information on the exact localization of the membrane mimetics used in the experiment and can be used to extract the positional information of the protein within the membrane. 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Allen JP (2019) Recent innovations in membrane-protein structural biology. F1000Res 8:211, DOI: 10.12688/f1000research.16234.1", "listPosition" : 1, "doi" : "10.12688/f1000research.16234.1", "published" : false, "snippet" : true }, { "otype" : "Reference", "mtid" : 2591706, "link" : "/api/reference/2591706", "label" : "2. Tusnády G, Dosztányi Z, Simon I (2005) TMDET: web server for detecting transmembrane regions of proteins by using their 3D coordinates. Bioinformatics 21:1276–1277, DOI: 10.1093/bioinformatics/bti121", "listPosition" : 2, "doi" : "10.1093/bioinformatics/bti121", "published" : false, "snippet" : true }, { "otype" : "Reference", "mtid" : 2591707, "link" : "/api/reference/2591707", "label" : "3. Stansfeld PJ, Goose JE, Caffrey M, Carpenter EP, Parker JL, Newstead S, Sansom MP (2015) MemProtMD: automated insertion of membrane protein structures into explicit lipid membranes. Structure 23:1350–1361, DOI: 10.1016/j.str.2015.05.006", "listPosition" : 3, "doi" : "10.1016/j.str.2015.05.006", "published" : false, "snippet" : true }, { "otype" : "Reference", "mtid" : 2591708, "link" : "/api/reference/2591708", "label" : "4. Hedger G, Samson MSP (2016) Lipid interaction sites on channels, transporters and receptors: recent insights from molecular dynamics simulations. Biochim Biophys Acta 1858:2391–2400", "listPosition" : 4, "published" : false, "snippet" : true }, { "otype" : "Reference", "mtid" : 2591709, "link" : "/api/reference/2591709", "label" : "5. Farkas B, Csizmadia G, Katona E, Tusnády GE, Hegedűs T (2019) MemBlob database and server for identifying transmembrane regions using cryo-EM maps. 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J Comput Chem 25:1605–1612, DOI: 10.1002/jcc.20084", "listPosition" : 7, "doi" : "10.1002/jcc.20084", "published" : false, "snippet" : true }, { "otype" : "Reference", "mtid" : 2591712, "link" : "/api/reference/2591712", "label" : "8. Trabuco LG, Villa E, Schreiner E, Harrison CB, Schulten K (2009) Molecular dynamics flexible fitting: a practical guide to combine cryo-electron microscopy and X-ray crystallography. Methods 49:174–180, DOI: 10.1016/j.ymeth.2009.04.005", "listPosition" : 8, "doi" : "10.1016/j.ymeth.2009.04.005", "published" : false, "snippet" : true } ], "hasCitationDuplums" : false, "inSelectedPubs" : "10065519", "userChangeableUntil" : "2020-05-14T12:39:03.525+0000", "directInstitutesForSort" : "Biofizikai és Sugárbiológiai Intézet (SE / AOK / I); MTA-SE Molekuláris Biofizikai Kutatócsoport (SE / AOK / I / BSI); Membránfehérje Bioinformatika Kutatócsoport (Le... (HRN TTK / MÉI); Roska Tamás Műszaki és Természettudományi Dokto... 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