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Identification of Extracellular Segments by Mass Spectrometry Improves Topology Prediction of Transmembrane Proteins

Langó, Tamás and Róna, Gergely and Hunyadi-Gulyás, Éva Csilla and Turiák, Lilla and Varga, Julia Kornélia and Dobson , László and Várady, György and Vértessy, Beáta (Grolmuszné) and Medzihradszky F., Katalin and Szakács, Gergely and Tusnády, Gábor (2017) Identification of Extracellular Segments by Mass Spectrometry Improves Topology Prediction of Transmembrane Proteins. SCIENTIFIC REPORTS, 7. pp. 1-9. ISSN 2045-2322

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Abstract

Transmembrane proteins play crucial role in signaling, ion transport, nutrient uptake, as well as in maintaining the dynamic equilibrium between the internal and external environment of cells. Despite their important biological functions and abundance, less than 2% of all determined structures are transmembrane proteins. Given the persisting technical difficulties associated with high resolution structure determination of transmembrane proteins, additional methods, including computational and experimental techniques remain vital in promoting our understanding of their topologies, 3D structures, functions and interactions. Here we report a method for the high-throughput determination of extracellular segments of transmembrane proteins based on the identification of surface labeled and biotin captured peptide fragments by LC/MS/MS. We show that reliable identification of extracellular protein segments increases the accuracy and reliability of existing topology prediction algorithms. Using the experimental topology data as constraints, our improved prediction tool provides accurate and reliable topology models for hundreds of human transmembrane proteins.

Item Type: Article
Subjects: Q Science / természettudomány > QH Natural history / természetrajz > QH301 Biology / biológia > QH3011 Biochemistry / biokémia
Q Science / természettudomány > QH Natural history / természetrajz > QH301 Biology / biológia > QH3015 Molecular biology / molekuláris biológia
R Medicine / orvostudomány > RM Therapeutics. Pharmacology / terápia, gyógyszertan
SWORD Depositor: MTMT SWORD
Depositing User: MTMT SWORD
Date Deposited: 06 Mar 2017 12:48
Last Modified: 06 Mar 2017 12:48
URI: http://real.mtak.hu/id/eprint/49935

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