Effortless assignment with 4D covariance sequential correlation maps

Bradley J. Harden, Subrata H. Mishra, Dominique P Frueh

Research output: Contribution to journalArticle

Abstract

Traditional Nuclear Magnetic Resonance (NMR) assignment procedures for proteins rely on preliminary peak-picking to identify and label NMR signals. However, such an approach has severe limitations when signals are erroneously labeled or completely neglected. The consequences are especially grave for proteins with substantial peak overlap, and mistakes can often thwart entire projects. To overcome these limitations, we previously introduced an assignment technique that bypasses traditional pick peaking altogether. Covariance Sequential Correlation Maps (COSCOMs) transform the indirect connectivity information provided by multiple 3D backbone spectra into direct (H, N) to (H, N) correlations. Here, we present an updated method that utilizes a single four-dimensional spectrum rather than a suite of three-dimensional spectra. We demonstrate the advantages of 4D-COSCOMs relative to their 3D counterparts. We introduce improvements accelerating their calculation. We discuss practical considerations affecting their quality. And finally we showcase their utility in the context of a 52 kDa cyclization domain from a non-ribosomal peptide synthetase.

Original languageEnglish (US)
Article number5720
Pages (from-to)83-88
Number of pages6
JournalJournal of Magnetic Resonance
Volume260
DOIs
StatePublished - Nov 1 2015

Fingerprint

Magnetic Resonance Spectroscopy
Nuclear magnetic resonance
Peptide Synthases
Cyclization
proteins
Labels
nuclear magnetic resonance
Proteins
bypasses
peptides

Keywords

  • 4D
  • Backbone assignment
  • COSCOM
  • Covariance sequential correlation maps
  • Peak picking

ASJC Scopus subject areas

  • Nuclear and High Energy Physics
  • Biochemistry
  • Biophysics
  • Condensed Matter Physics

Cite this

Effortless assignment with 4D covariance sequential correlation maps. / Harden, Bradley J.; Mishra, Subrata H.; Frueh, Dominique P.

In: Journal of Magnetic Resonance, Vol. 260, 5720, 01.11.2015, p. 83-88.

Research output: Contribution to journalArticle

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