Simultaneous detection of intra-and inter-molecular paramagnetic relaxation enhancements in protein complexes

Cristina Olivieri, Manu Veliparambil Subrahmanian, Youlin Xia, Jonggul Kim, Fernando Porcelli, Gianluigi Veglia

Research output: Contribution to journalArticlepeer-review

3 Scopus citations

Abstract

Paramagnetic relaxation enhancement (PRE) measurements constitute a powerful approach for detecting both permanent and transient protein–protein interactions. Typical PRE experiments require an intrinsic or engineered paramagnetic site on one of the two interacting partners; while a second, diamagnetic binding partner is labeled with stable isotopes (15N or13C). Multiple paramagnetic labeled centers or reversed labeling schemes are often necessary to obtain sufficient distance restraints to model protein–protein complexes, making this approach time consuming and expensive. Here, we show a new strategy that combines a modified pulse sequence (1HN2-CCLS) with an asymmetric labeling scheme to enable the detection of both intra-and inter-molecular PREs simultaneously using only one sample preparation. We applied this strategy to the noncovalent dimer of ubiquitin. Our method confirmed the previously identified binding interface for the transient di-ubiquitin complex, and at the same time, unveiled the internal structural dynamics rearrangements of ubiquitin upon interaction. In addition to reducing the cost of sample preparation and speed up PRE measurements, by detecting the intra-molecular PRE this new strategy will make it possible to measure and calibrate inter-molecular distances more accurately for both symmetric and asymmetric protein–protein complexes.

Original languageEnglish (US)
Pages (from-to)133-140
Number of pages8
JournalJournal of biomolecular NMR
Volume70
Issue number3
DOIs
StatePublished - Mar 2018

Bibliographical note

Funding Information:
Acknowledgements This research was supported by the National Institute of Health (GM 100310 and 1S10OD021536 to G.V.). We authors would like to thank Dr. G. Li for helping in the initial setting of the experiments. The experiments were carried out at the Minnesota NMR Center.

Publisher Copyright:
© Springer Science+Business Media B.V., part of Springer Nature 2018.

Keywords

  • Intra-and inter-molecular PRE
  • Paramagnetic relaxation enhancement
  • Protein
  • Protein interactions

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