BioNMR - Transforming between discrete and continuous angle distribution models: application to protein Ï?1 torsions

Transforming between discrete and continuous angle distribution models: application to protein Ï?1 torsions

Abstract Two commonly employed angular-mobility models for describing amino-acid side-chain Ï?1 torsion conformation, the staggered-rotamer jump and the normal probability density, are discussed and performance differences in applications to scalar-coupling data interpretation highlighted. Both models differ in their distinct statistical concepts, representing discrete and continuous angle distributions, respectively. Circular statistics, introduced for describing torsion-angle distributions by using a universal circular order parameter central to all models, suggest another distribution of the continuous class, here referred to as the elliptic model. Characteristic of the elliptic model is that order parameter and circular variance form complementary moduli. Transformations between the parameter sets that describe the probability density functions underlying the different models are provided. Numerical aspects of parameter optimization are considered. The issues are typified by using a set of Ï?1 related 3 J coupling constants available for FK506-binding protein. The discrete staggered-rotamer model is found generally to produce lower order parameters, implying elevated rotatory variability in the amino-acid side chains, whereas continuous models tend to give higher order parameters that suggest comparatively less variation in angle conformations. The differences perceived regarding angular mobility are attributed to conceptually different features inherent to the models.

Content Type Journal Article
Category Article
Pages 1-18
DOI 10.1007/s10858-012-9653-2
Authors
- JÃ¼rgen M. Schmidt, School of Biosciences, University of Kent, Canterbury, Kent, CT2 7NJ UK

- Journal Journal of Biomolecular NMR
- Online ISSN 1573-5001
- Print ISSN 0925-2738

Source: Journal of Biomolecular NMR