title: Ensemble-based interpretations of NMR structural data to describe protein internal dynamics.
abstract: NMR spectroscopy is the leading technique to characterize protein internal dynamics at the atomic level and on multiple time scales. However, the structural interpretation of the observables obtained by various measurements is not always straightforward and in many cases dynamics-related parameters are only used to "decorate" static structural models without offering explicit description of conformational heterogeneity. To overcome such limitations, several computational techniques have been developed to generate ensemble-based representations of protein structure and dynamics with the use of NMR-derived data. An important common aspect of the methods is that NMR observables and derived parameters are interpreted as properties of the ensemble instead of individual conformers. The resulting ensembles reflect the experimentally determined internal mobility of proteins at a given time scale and can be used to understand the role of internal motions in biological processes at atomic detail. In this review we provide an overview of the calculation methods currently available and examples of biological insights obtained by the ensemble-based models of the proteins investigated.
authors.affiliation: Faculty of Information Technology, Pázmány Péter Catholic University, Budapest 1083, Práter Street 50/A, Hungary.
authors.forename: Annamária F
authors.initials: AF
authors.lastname: Ángyán
authors.forename: Zoltán
authors.initials: Z
authors.lastname: Gáspári
mesh_terms: D000465:Algorithms; D054298:Human Immunodeficiency Virus Proteins / Q000737:chemistry; D006801:Humans; D064267:Intrinsically Disordered Proteins / Q000737:chemistry*; D056004:Molecular Dynamics Simulation; D009010:Monte Carlo Method; D019906:Nuclear Magnetic Resonance, Biomolecular; D056921:Nuclear Receptor Coactivator 3 / Q000737:chemistry; D010447:Peptide Hydrolases / Q000737:chemistry; D011485:Protein Binding; D017433:Protein Structure, Secondary; D017434:Protein Structure, Tertiary; D054334:Viral Regulatory and Accessory Proteins / Q000737:chemistry; D000086082:Viroporin Proteins
chemical_list: D054298:Human Immunodeficiency Virus Proteins; D064267:Intrinsically Disordered Proteins; D056921:Nuclear Receptor Coactivator 3; D010447:Peptide Hydrolases; D054334:Viral Regulatory and Accessory Proteins; C514859:vpu protein, Human immunodeficiency virus 1; D000086082:Viroporin Proteins; C538866:NCOA3 protein, human