Deciphering the mode of action of the processive polysaccharide modifying enzyme dermatan sulfate epimerase 1 by hydrogen-deuterium exchange mass spectrometry

Emil Tykesson, Yang Mao, Marco MacCarana, Yi Pu, Jinshan Gao, Cheng Lin, Joseph Zaia, Gunilla Westergren-Thorsson, Ulf Ellervik, Lars Malmström, Anders Malmström

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Abstract

Distinct from template-directed biosynthesis of nucleic acids and proteins, the enzymatic synthesis of heterogeneous polysaccharides is a complex process that is difficult to study using common analytical tools. Therefore, the mode of action and processivity of those enzymes are largely unknown. Dermatan sulfate epimerase 1 (DS-epi1) is the predominant enzyme during the formation of iduronic acid residues in the glycosaminoglycan dermatan sulfate. Using recombinant DS-epi1 as a model enzyme, we describe a tandem mass spectrometry-based method to study the mode of action of polysaccharide processing enzymes. The enzyme action on the substrate was monitored by hydrogen-deuterium exchange mass spectrometry and the sequence information was then fed into mathematical models with two different assumptions of the mode of action for the enzyme: processive reducing end to non-reducing end, and processive non-reducing end to reducing end. Model data was scored by correlation to experimental data and it was found that DS-epi1 attacks its substrate on a random position, followed by a processive mode of modification towards the non-reducing end and that the substrate affinity of the enzyme is negatively affected by each additional epimerization event. It could also be shown that the smallest active substrate was the reducing end uronic acid in a tetrasaccharide and that octasaccharides and longer oligosaccharides were optimal substrates. The method of using tandem mass spectrometry to generate sequence information of the complex enzymatic products in combination with in silico modeling can be potentially applied to study the mode of action of other enzymes involved in polysaccharide biosynthesis.

Original languageEnglish
Pages (from-to)1447-1456
Number of pages10
JournalChemical Science
Volume7
Issue number2
DOIs
StatePublished - 1 Jan 2016

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Racemases and Epimerases
Dermatan Sulfate
Deuterium
Mass spectrometry
Polysaccharides
Hydrogen
Enzymes
Substrates
Biosynthesis
Iduronic Acid
Uronic Acids
Glycosaminoglycans
Oligosaccharides
Nucleic Acids
Mathematical models

Cite this

Tykesson, Emil ; Mao, Yang ; MacCarana, Marco ; Pu, Yi ; Gao, Jinshan ; Lin, Cheng ; Zaia, Joseph ; Westergren-Thorsson, Gunilla ; Ellervik, Ulf ; Malmström, Lars ; Malmström, Anders. / Deciphering the mode of action of the processive polysaccharide modifying enzyme dermatan sulfate epimerase 1 by hydrogen-deuterium exchange mass spectrometry. In: Chemical Science. 2016 ; Vol. 7, No. 2. pp. 1447-1456.
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Tykesson, E, Mao, Y, MacCarana, M, Pu, Y, Gao, J, Lin, C, Zaia, J, Westergren-Thorsson, G, Ellervik, U, Malmström, L & Malmström, A 2016, 'Deciphering the mode of action of the processive polysaccharide modifying enzyme dermatan sulfate epimerase 1 by hydrogen-deuterium exchange mass spectrometry', Chemical Science, vol. 7, no. 2, pp. 1447-1456. https://doi.org/10.1039/c5sc03798k

Deciphering the mode of action of the processive polysaccharide modifying enzyme dermatan sulfate epimerase 1 by hydrogen-deuterium exchange mass spectrometry. / Tykesson, Emil; Mao, Yang; MacCarana, Marco; Pu, Yi; Gao, Jinshan; Lin, Cheng; Zaia, Joseph; Westergren-Thorsson, Gunilla; Ellervik, Ulf; Malmström, Lars; Malmström, Anders.

In: Chemical Science, Vol. 7, No. 2, 01.01.2016, p. 1447-1456.

Research output: Contribution to journalArticleResearchpeer-review

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AU - Tykesson, Emil

AU - Mao, Yang

AU - MacCarana, Marco

AU - Pu, Yi

AU - Gao, Jinshan

AU - Lin, Cheng

AU - Zaia, Joseph

AU - Westergren-Thorsson, Gunilla

AU - Ellervik, Ulf

AU - Malmström, Lars

AU - Malmström, Anders

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