title: A novel computational approach to integrate NMR spectroscopy and capillary electrophoresis for structure assignment of heparin and heparan sulfate oligosaccharides.
abstract: Heparin and heparan sulfate (HS) glycosaminoglycans (GAGs) are cell surface polysaccharides that bind to a multitude of signaling molecules, enzymes, and pathogens and modulate critical biological processes ranging from cell growth and development to anticoagulation and viral invasion. Heparin has been widely used as an anticoagulant in a variety of clinical applications for several decades. The heterogeneity and complexity of HS GAGs pose significant challenges to their purification and characterization of structure-function relationships. Nuclear magnetic resonance (NMR) spectroscopy is a promising tool that provides abundant sequence and structure information for characterization of HS GAGs. However, complex NMR spectra and low sensitivity often make analysis of HS GAGs a daunting task. We report the development of a novel methodology that incorporates distinct linkage information between adjacent monosaccharides obtained from NMR and capillary electrophoresis (CE) data using a property encoded nomenclature (PEN) computational framework to facilitate a rapid and unbiased procedure for sequencing HS GAG oligosaccharides. We demonstrate that the integration of NMR and CE data sets with the help of the PEN framework dramatically reduces the number of experimental constraints required to arrive at an HS GAG oligosaccharide sequence.
authors.affiliation: Institute for Chemical and Biochemical Research, G. Ronzoni, via G. Colombo 81, 20133 Milan, Italy. guerrini.m@ronzoni.it
authors.forename: Marco
authors.initials: M
authors.lastname: Guerrini
authors.forename: Rahul
authors.initials: R
authors.lastname: Raman
authors.forename: Ganesh
authors.initials: G
authors.lastname: Venkataraman
authors.forename: Giangiacomo
authors.initials: G
authors.lastname: Torri
authors.forename: Ram
authors.initials: R
authors.lastname: Sasisekharan
authors.forename: Benito
authors.initials: B
authors.lastname: Casu
mesh_terms: D002236:Carbohydrate Conformation; D002240:Carbohydrate Sequence; D019075:Electrophoresis, Capillary / Q000379:methods*; D006493:Heparin / Q000737:chemistry*; D006497:Heparan Sulfate / Q000737:chemistry*; D009682:Magnetic Resonance Spectroscopy / Q000379:methods*
chemical_list: D006493:Heparin; D006497:Heparan Sulfate