Utilizing dipole-dipole cross-correlated relaxation for the measurement of angles between pairs of opposing CαHα-CαHα bonds in anti-parallel β-sheets

•New method to measure CCR between opposing CαHα bonds in anti-parallel β-sheets.•Illustration of the structural and dynamic content encompassed by the CCR rate.•Application of the CCR rate for guiding the generation of structural ensembles. Dipole-dipole cross-correlated relaxation (CCR) between tw...

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Bibliographic Details
Published in:Methods (San Diego, Calif.) Calif.), 2018-04, Vol.138-139, p.85-92
Main Authors: Sabo, T. Michael, Gapsys, Vytautas, Walter, Korvin F.A., Fenwick, R. Bryn, Becker, Stefan, Salvatella, Xavier, de Groot, Bert L., Lee, Donghan, Griesinger, Christian
Format: Article
Language:English
Subjects:
Bacterial Proteins - analysis
Bacterial Proteins - metabolism
Nuclear Magnetic Resonance, Biomolecular - methods
Protein Conformation, beta-Strand
Streptococcus - metabolism
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Summary:•New method to measure CCR between opposing CαHα bonds in anti-parallel β-sheets.•Illustration of the structural and dynamic content encompassed by the CCR rate.•Application of the CCR rate for guiding the generation of structural ensembles. Dipole-dipole cross-correlated relaxation (CCR) between two spin pairs is rich with macromolecular structural and dynamic information on inter-nuclear bond vectors. Measurement of short range dipolar CCR rates has been demonstrated for a variety of inter-nuclear vector spin pairs in proteins and nucleic acids, where the multiple quantum coherence necessary for observing the CCR rate is created by through-bond scalar coupling. In principle, CCR rates can be measured for any pair of inter-nuclear vectors where coherence can be generated between one spin of each spin pair, regardless of both the distance between the two spin pairs and the distance of the two spins forming the multiple quantum coherence. In practice, however, long range CCR (lrCCR) rates are challenging to measure due to difficulties in linking spatially distant spin pairs. By utilizing through-space relaxation allowed coherence transfer (RACT), we have developed a new method for the measurement of lrCCR rates involving CαHα bonds on opposing anti-parallel β-strands. The resulting lrCCR rates are straightforward to interpret since only the angle between the two vectors modulates the strength of the interference effect. We applied our lrCCR measurement to the third immunoglobulin-binding domain of the streptococcal protein G (GB3) and utilize published NMR ensembles and static NMR/X-ray structures to highlight the relationship between the lrCCR rates and the CαHα-CαHα inter-bond angle and bond mobility. Furthermore, we employ the lrCCR rates to guide the selection of sub-ensembles from the published NMR ensembles for enhancing the structural and dynamic interpretation of the data. We foresee this methodology for measuring lrCCR rates as improving the generation of structural ensembles by providing highly accurate details concerning the orientation of CαHα bonds on opposing anti-parallel β-strands.
ISSN:1046-2023
1095-9130
DOI:10.1016/j.ymeth.2018.04.007