7KS6

STRUCTURE OF TETRASACCHARIDE BUILDING BLOCK OF A SULFATED FUCAN FROM LYTECHINUS VARIEGATUS

7KS6 の概要

• エントリーDOI: 10.2210/pdb7ks6/pdb
• 分子名称: 4-O-sulfo-alpha-L-fucopyranose-(1-3)-2,4-di-O-sulfo-alpha-L-fucopyranose-(1-3)-2-O-sulfo-alpha-L-fucopyranose-(1-3)-2-O-sulfo-alpha-L-fucopyranose (1 entity in total)
• 機能のキーワード: sulfated fucan, tetrasaccharide, carbohydrate, carbohydrate unit
• 由来する生物種: Lytechinus variegatus
• 化学式量合計: 1002.90

構造登録者

Kim, S.B.,Thara, R.,Aderibigbe, A.O.,Doerksen, R.J.,Pomin, V.H. (登録日: 2020-11-21, 公開日: 2020-12-16, 最終更新日: 2024-05-01)

主引用文献

Bezerra, F.F.,Vignovich, W.P.,Aderibigbe, A.O.,Liu, H.,Sharp, J.S.,Doerksen, R.J.,Pomin, V.H.
Conformational properties of l-fucose and the tetrasaccharide building block of the sulfated l-fucan from Lytechinus variegatus.
J.Struct.Biol., 209:107407-107407, 2020

PubMed Abstract: Although the 3D structure of carbohydrates is known to contribute to their biological roles, conformational studies of sugars are challenging because their chains are flexible in solution and consequently the number of 3D structural restraints is limited. Here, we investigate the conformational properties of the tetrasaccharide building block of the Lytechinus variegatus sulfated fucan composed of the following structure [l-Fucp4(SO)-α(1-3)-l-Fucp2,4(SO)-α(1-3)-l-Fucp2(SO)-α(1-3)-l-Fucp2(SO)] and the composing monosaccharide unit Fucp, primarily by nuclear magnetic resonance (NMR) experiments performed at very low temperatures and using HO as the solvent for the sugars rather than using the conventional deuterium oxide. By slowing down the fast chemical exchange rates and forcing the protonation of labile sites, we increased the number of through-space H-H distances that could be measured by NMR spectroscopy. Following this strategy, additional conformational details of the tetrasaccharide and l-Fucp in solution were obtained. Computational molecular dynamics was performed to complement and validate the NMR-based measurements. A model of the NMR-restrained 3D structure is offered for the tetrasaccharide.

PubMed: 31698075
DOI: 10.1016/j.jsb.2019.107407

実験手法

SOLUTION NMR