Literature DB >> 32738719

The conformation of the idopyranose ring revisited: How subtle O-substituent induced changes can be deduced from vicinal 1H-NMR coupling constants.

Cornelis A G Haasnoot1, René de Gelder2, Huub Kooijman3, Edwin R Kellenbach4.   

Abstract

The idopyranose ring plays a pivotal role in the conformational, dynamical, and intermolecular binding aspects of glycosaminoglycans like heparin and dermatan sulfate and it was early on assigned a role in the Sugar Code governing biological recognition processes. There is consensus that next to the two canonical 1C4 and 4C1 chair conformations, the conformational space accessible to the idopyranose ring entails a 2SO skew-boat conformation, but the equilibrium between these three ring puckers has evaded satisfactory quantification. In this study a meta-analysis of X-ray solid-state data and vicinal NMR coupling constants is presented, based on the Truncated Fourier Puckering (TFP) formalism and the generalized Karplus (CAGPLUS) equation. This approach yields a model-free, granular and consistent reckoning of 159 idopyranose solution puckering equilibria studied by NMR and allows us to reproduce the involved 636 NMR vicinal couplings with an overall residual RMS(Jobs-Jcalc) of 0.184 Hz. Our analyses show that for all ring systems examined, the idopyranosyl chair conformations take up the same ring pucker irrespective of the ring substituent pattern or a vast variety in experimental conditions. Instead, it is the (skew-)boat conformation that adapts to the substitution pattern of the idopyranose ring or a specific sulfation pattern of neighboring saccharides. All idopyranose rings are involved in conformational equilibria that subsume the aforementioned conformers which turn out to differ only a few kJ/mole in conformational energy. Thus, the plasticity and flexibility of idopyranose remains intact under practically all circumstances and, as the glycosidic linkages in heparin are considered to be relatively stiff, the iduronic moiety functions as the linchpin of heparin flexibility thereby being rather a "space(r)" than a "letter" in the alleged Sugar Code alphabet.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  Conformational equilibrium; Glycosaminoglycan; Heparin constituents; Six-membered ring puckering; Sugar code; X-ray data

Mesh:

Substances:

Year:  2020        PMID: 32738719     DOI: 10.1016/j.carres.2020.108052

Source DB:  PubMed          Journal:  Carbohydr Res        ISSN: 0008-6215            Impact factor:   2.104


  2 in total

1.  3-O-Sulfation induces sequence-specific compact topologies in heparan sulfate that encode a dynamic sulfation code.

Authors:  Samuel G Holmes; Balaji Nagarajan; Umesh R Desai
Journal:  Comput Struct Biotechnol J       Date:  2022-07-18       Impact factor: 6.155

2.  A click-flipped enzyme substrate boosts the performance of the diagnostic screening for Hunter syndrome.

Authors:  Markus Schwarz; Philipp Skrinjar; Michael J Fink; Stefan Kronister; Thomas Mechtler; Panagiotis I Koukos; Alexandre M J J Bonvin; David C Kasper; Hannes Mikula
Journal:  Chem Sci       Date:  2020-10-23       Impact factor: 9.825

  2 in total

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