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4D Non-uniformly sampled HCBCACON and 1J(NC α)- selective HCBCANCO experiments for the sequential assignment and chemical shift analysis of intrinsically disordered proteins

  • Jiří Nováček
  • , Noam Y. Haba
  • , Jordan H. Chill
  • , Lukáš Žídek
  • , Vladimí Sklenář
  • Masaryk University
  • Bar-Ilan University

Research output: Contribution to journalArticlepeer-review

40 Scopus citations

Abstract

A pair of 4D NMR experiments for the backbone assignment of disordered proteins is presented. The experiments exploit 13C direct detection and non-uniform sampling of the indirectly detected dimensions, and provide correlations of the aliphatic proton (H α, and H β) and carbon (C α, C β) resonance frequencies to the protein backbone. Thus, all the chemical shifts regularly used to map the transient secondary structure motifs in the intrinsically disordered proteins (H α, C α, C β, C0, and N) can be extracted from each spectrum. Compared to the commonly used assignment strategy based on matching the C α and Cb chemical shifts, inclusion of the H α and H β provides up to three extra resonance frequencies that decrease the chance of ambiguous assignment. The experiments were successfully applied to the original assignment of a 12.8 kDa intrinsically disordered protein having a high content of proline residues (26 %) in the sequence.

Original languageEnglish
Pages (from-to)139-148
Number of pages10
JournalJournal of Biomolecular NMR
Volume53
Issue number2
DOIs
StatePublished - Jun 2012

Bibliographical note

Funding Information:
Acknowledgments This work was supported by the project ‘‘CEI-TEC - Central European Institute of Technology’’ from European Regional Development Fund, grant number CZ.1.05/1.1.00/02.0068, (J. N., L. Z., and V. S.) and by the Czech Science Foundation, grant numbers P206/11/0758 (J. N., L. Z., and V. S.). J.H.C. acknowledges the support of a Legacy Heritage personal grant by the Israel Science Foundation. Financial support by the Access to Research Infrastructures activity in the 7th Framework Programme of the EC (Contract 228461, EAST-NMR) for conducting the research is gratefully acknowledged. The project is a part of Joint Research Activity in the 7th Framework program of the EC (BioNMR n. 261863).

Funding

Acknowledgments This work was supported by the project ‘‘CEI-TEC - Central European Institute of Technology’’ from European Regional Development Fund, grant number CZ.1.05/1.1.00/02.0068, (J. N., L. Z., and V. S.) and by the Czech Science Foundation, grant numbers P206/11/0758 (J. N., L. Z., and V. S.). J.H.C. acknowledges the support of a Legacy Heritage personal grant by the Israel Science Foundation. Financial support by the Access to Research Infrastructures activity in the 7th Framework Programme of the EC (Contract 228461, EAST-NMR) for conducting the research is gratefully acknowledged. The project is a part of Joint Research Activity in the 7th Framework program of the EC (BioNMR n. 261863).

FundersFunder number
Seventh Framework Programme228461, 261863
European Commission
Grantová Agentura České RepublikyP206/11/0758
Israel Science Foundation
Central European Institute of Technology
European Regional Development FundCZ.1.05/1.1.00/02.0068

    Keywords

    • C detection
    • Chemical shifts
    • Intrinsically disordered proteins
    • Nonuniform sampling
    • Prolines assignment
    • Residual secondary structure

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