scholarly journals NMR-Based Configurational Assignments of Natural Products: Gibbs Sampling and Bayesian Inference Using Floating Chirality Distance Geometry Calculations

Marine Drugs ◽  
2021 ◽  
Vol 20 (1) ◽  
pp. 14
Author(s):  
Stefan Immel ◽  
Matthias Köck ◽  
Michael Reggelin

Floating chirality restrained distance geometry (fc-rDG) calculations are used to directly evolve structures from NMR data such as NOE-derived intramolecular distances or anisotropic residual dipolar couplings (RDCs). In contrast to evaluating pre-calculated structures against NMR restraints, multiple configurations (diastereomers) and conformations are generated automatically within the experimental limits. In this report, we show that the “unphysical” rDG pseudo energies defined from NMR violations bear statistical significance, which allows assigning probabilities to configurational assignments made that are fully compatible with the method of Bayesian inference. These “diastereomeric differentiabilities” then even become almost independent of the actual values of the force constants used to model the restraints originating from NOE or RDC data.

2018 ◽  
Vol 8 (4) ◽  
pp. 279-295 ◽  
Author(s):  
Gao-Wei Li ◽  
Han Liu ◽  
Feng Qiu ◽  
Xiao-Juan Wang ◽  
Xin-Xiang Lei

2017 ◽  
Vol 129 (13) ◽  
pp. 3714-3718 ◽  
Author(s):  
Eduardo Troche-Pesqueira ◽  
Clemens Anklin ◽  
Roberto R. Gil ◽  
Armando Navarro-Vázquez

2017 ◽  
Vol 56 (13) ◽  
pp. 3660-3664 ◽  
Author(s):  
Eduardo Troche-Pesqueira ◽  
Clemens Anklin ◽  
Roberto R. Gil ◽  
Armando Navarro-Vázquez

Marine Drugs ◽  
2020 ◽  
Vol 18 (6) ◽  
pp. 330
Author(s):  
Matthias Köck ◽  
Michael Reggelin ◽  
Stefan Immel

The configurational analysis of complex natural products by NMR spectroscopy is still a challenging task. The assignment of the relative configuration is usually carried out by analysis of interproton distances from NOESY or ROESY spectra (qualitative or quantitative) and scalar (J) couplings. About 15 years ago, residual dipolar couplings (RDCs) were introduced as a tool for the configurational determination of small organic molecules. In contrast to NOEs/ROEs which are local parameters (distances up to 400 pm can be detected for small organic molecules), RDCs are global parameters which allow to obtain structural information also from long-range relationships. RDCs have the disadvantage that the sample needs a setup in an alignment medium in order to obtain the required anisotropic environment. Here, we will discuss the configurational analysis of five complex natural products: axinellamine A (1), tetrabromostyloguanidine (2), 3,7-epi-massadine chloride (3), tubocurarine (4), and vincristine (5). Compounds 1–3 are marine natural products whereas 4 and 5 are from terrestrial sources. The chosen examples will carefully work out the limitations of NOEs/ROEs in the configurational analysis of natural products and will also provide an outlook on the information obtained from RDCs.


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