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Rapid Biophysical Characterization and NMR Spectroscopy Structural Analysis of Small Proteins from Bacteria and Archaea

Journal article
Authors Nina Kubatova
Dennis J. Pyper
Hendrik R.A. Jonker
Krishna Saxena
Laura Remmel
Christian Richter
Sabine Brantl
Elena Evguenieva-Hackenberg
Wolfgang R. Hess
Gabriele Klug
Anita Marchfelder
Jörg Soppa
Wolfgang Streit
Maxim Mayzel
Vladislav Orekhov
Monika Fuxreiter
Ruth A. Schmitz
Harald Schwalbe
Published in ChemBioChem
Volume 21
Issue 8
Pages 1178-1187
ISSN 1439-4227
Publication year 2020
Published at Swedish NMR Centre at Göteborg University
Department of Chemistry and Molecular Biology
Pages 1178-1187
Language en
Keywords NMR spectroscopy, proteomics, small proteins, structural biology, structure–activity relationships
Subject categories Structural Biology, Biochemistry, Molecular biophysics


© 2020 The Authors. Published by Wiley-VCH Verlag GmbH & Co. KGaA. Proteins encoded by small open reading frames (sORFs) have a widespread occurrence in diverse microorganisms and can be of high functional importance. However, due to annotation biases and their technically challenging direct detection, these small proteins have been overlooked for a long time and were only recently rediscovered. The currently rapidly growing number of such proteins requires efficient methods to investigate their structure–function relationship. Herein, a method is presented for fast determination of the conformational properties of small proteins. Their small size makes them perfectly amenable for solution-state NMR spectroscopy. NMR spectroscopy can provide detailed information about their conformational states (folded, partially folded, and unstructured). In the context of the priority program on small proteins funded by the German research foundation (SPP2002), 27 small proteins from 9 different bacterial and archaeal organisms have been investigated. It is found that most of these small proteins are unstructured or partially folded. Bioinformatics tools predict that some of these unstructured proteins can potentially fold upon complex formation. A protocol for fast NMR spectroscopy structure elucidation is described for the small proteins that adopt a persistently folded structure by implementation of new NMR technologies, including automated resonance assignment and nonuniform sampling in combination with targeted acquisition.

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