Academic Journal
Landscape of Eukaryotic Transmembrane Beta Barrel Proteins
| العنوان: | Landscape of Eukaryotic Transmembrane Beta Barrel Proteins |
|---|---|
| المؤلفون: | Roumia A.F., Theodoropoulou M.C., Tsirigos K.D., Nielsen H., Bagos P.G. |
| المصدر: | Journal of Proteome Research ; https://www.scopus.com/inward/record.uri?eid=2-s2.0-85081945810&doi=10.1021%2facs.jproteome.9b00740&partnerID=40&md5=0ff70b510e261f6f9759a166805d0ae9 |
| سنة النشر: | 2020 |
| المجموعة: | University of Thessaly Institutional Repository / Ιδρυματικό Αποθετήριο Πανεπιστημίου Θεσσαλίας |
| مصطلحات موضوعية: | beta barrel protein, chloroplast protein, mdm10 protein, mitochondrial protein, oep21 protein, oep23 protein, oep24 protein, oep37 protein, oep40 protein, oep80 protein, outer membrane protein, porin, sam50 protein, tgd4 protein, toc75 protein, unclassified drug, voltage dependent anion channel, protein, amino acid sequence, Article, chloroplast, eukaryote, hidden Markov model, mitochondrion, nonhuman, priority journal, protein analysis, protein database, eukaryotic cell, genetics |
| الوصف: | Even though in the last few years several families of eukaryotic β-barrel outer membrane proteins have been discovered, their computational characterization and their annotation in public databases are far from complete. The PFAM database includes only very few characteristic profiles for these families, and in most cases, the profile hidden Markov models (pHMMs) have been trained using prokaryotic and eukaryotic proteins together. Here, we present for the first time a comprehensive computational analysis of eukaryotic transmembrane β-barrels. Twelve characteristic pHMMs were built, based on an extensive literature search, which can discriminate eukaryotic β-barrels from other classes of proteins (globular and bacterial β-barrel ones), as well as between mitochondrial and chloroplastic ones. We built eight novel profiles for the chloroplastic β-barrel families that are not present in the PFAM database and also updated the profile for the MDM10 family (PF12519) in the PFAM database and divide the porin family (PF01459) into two separate families, namely, VDAC and TOM40. Copyright © 2020 American Chemical Society. |
| نوع الوثيقة: | article in journal/newspaper |
| اللغة: | English |
| تدمد: | 15353893 |
| Relation: | http://hdl.handle.net/11615/78588 |
| DOI: | 10.1021/acs.jproteome.9b00740 |
| الاتاحة: | http://hdl.handle.net/11615/78588 https://doi.org/10.1021/acs.jproteome.9b00740 |
| رقم الانضمام: | edsbas.36454A79 |
| قاعدة البيانات: | BASE |
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