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Taxonomic group: bacteria / Proteobacteria (Phylum: Proteobacteria)
Associated disease: infection due to Escherichia coli [ICD11: XN6P4

]

NCBI PubMed ID: 24771296
Publication DOI: 10.1007/s10858-014-9830-6
Journal NLM ID: 9110829
Publisher: ESCOM Science Publishers
Correspondence: G. Widmalm <gw

organ.su.se>
Institutions: Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm, Sweden

In this study, a set of nuclear magnetic resonance experiments, some of them commonly used in the study of 13C-labeled proteins and/or nucleic acids, is applied for the structure determination of uniformly 13C-enriched carbohydrates. Two model substances were employed: one compound of low molecular weight [(UL-13C)-sucrose, 342 Da] and one compound of medium molecular weight (13C-enriched O-antigenic polysaccharide isolated from Escherichia coli O142, ~10 kDa). The first step in this approach involves the assignment of the carbon resonances in each monosaccharide spin system using the anomeric carbon signal as the starting point. The 13C resonances are traced using 13C-13C correlations from homonuclear experiments, such as (H)CC-CT-COSY, (H)CC-NOESY, CC-CT-TOCSY and/or virtually decoupled (H)CC-TOCSY. Based on the assignment of the 13C resonances, the 1H chemical shifts are derived in a straightforward manner using one-bond 1H-13C correlations from heteronuclear experiments (HC-CT-HSQC). In order to avoid the 1 J CC splitting of the 13C resonances and to improve the resolution, either constant-time (CT) in the indirect dimension or virtual decoupling in the direct dimension were used. The monosaccharide sequence and linkage positions in oligosaccharides were determined using either 13C or 1H detected experiments, namely CC-CT-COSY, band-selective (H)CC-TOCSY, HC-CT-HSQC-NOESY or long-range HC-CT-HSQC. However, due to the short T2 relaxation time associated with larger polysaccharides, the sequential information in the O-antigen polysaccharide from E. coli O142 could only be elucidated using the 1H-detected experiments. Exchanging protons of hydroxyl groups and N-acetyl amides in the 13C-enriched polysaccharide were assigned by using HC-H2BC spectra. The assignment of the N-acetyl groups with 15N at natural abundance was completed by using HN-SOFAST-HMQC, HNCA, HNCO and 13C-detected (H)CACO spectra.

NMR, carbohydrates, structure, Escherichia coli, Structure determination, 13C-uniform labeling

Structure type: suggested polymer biological repeating unit
Location inside paper: p.97, fig.1
Trivial name: O-polysaccharide
Compound class: O-polysaccharide, O-antigen
Contained glycoepitopes: IEDB_130648,IEDB_135813,IEDB_136105,IEDB_137340,IEDB_137473,IEDB_1391961,IEDB_1391965,IEDB_141582,IEDB_141584,IEDB_141807,IEDB_151531,IEDB_225177,IEDB_423113,IEDB_885822,IEDB_885823

Methods: 13C NMR, 1H NMR, NMR-2D, 13C-enriched polysaccharide
Comments, role: biological repeat frame was based on GT homology analysis

Related record ID(s): 3110, 3113, 20685
NCBI Taxonomy refs (TaxIDs): 562
Reference(s) to other database(s): GTC:G40436AU, GlycomeDB:28126
Show glycosyltransferases

There is only one chemically distinct structure:

*O[C@H]1[C@H](OC[C@H]2O[C@H](O[C@@H]3[C@H](O[C@@H]4O[C@H](CO)[C@@H](O)[C@H](O)[C@H]4NC(C)=O)[C@@H](NC(C)=O)[C@@H](O[C@H]4[C@@H](O)[C@@H](CO)O[C@H](*)[C@@H]4NC(C)=O)O[C@@H]3CO)[C@H](NC(C)=O)[C@@H](O)[C@H]2O)O[C@@H](C)[C@H](O)[C@H]1O

SVG MW SMILES 3D mol Ionize