Identification of methotrexate and folic acid analogs by mass spectrometry

Methotrexate and folic acid analogs are polar molecules and attempts to obtain electron impact and chemical ionization mass spectra of these compounds by several laboratories have failed. We have found that methylation of this important class of compounds with diazomethane produces derivatives which are sufficiently volatile to allow their mass spectra to be recorded. The mass spectra of the methyl derivatives of five compounds, 4-amino-4-deoxy-N10-methylpteroylglutamic acid, 4-amimo-4-deoxypteroylglutamic acid, pteroylglutamic acid, 4-amino-4-deoxypteroic acid and N10-methylpteroylglutamic acid are presented, and the fragmentation pathways of these compounds discussed.     

Chemical and n.m.r.-spectroscopic investigation of the capsular polysaccharide of klebsiella serotype k41

The structure of the repeating unit of the capsular polysaccharide from Klebsiella type 41 has been investigated by methylation analysis of the original and the carboxyl-reduced polymer, uronic acid degradation, Smith degradation, and graded acid hydrolysis. Proton- and ¹³C-n.m.r. spectroscopy of the original polysaccharide and of the fragments obtained by various methods confirmed some structural features and allowed determination of the anomeric configuration of the glycosidic linkages. This polysaccharide is shown to have the following heptasaccharide repeating-unit:

This is the first polysaccharide antigen K of the Klebsiella series found to have seven sugar residues in its repeating unit, and to contain a galactose residue in its furanose form.     

Evaluation of restriction fragment length polymorphism analysis of 16S rDNA as a tool for genomovar characterisation within the Burkholderia cepacia complex

The polysaccharides formed on hot alkaline extraction of the ascomycetous lichen Teloschistes flavicans were fractionated to give two glucans, which were characterised by methylation analysis and 1D and 2D NMR spectroscopy. One was a branched beta-glucan containing (1-->3) and (1-->6) linkages, a structure which is more typical of basidiomycetes rather than ascomycetes, which have linear glucans. The other was an alpha-glucan with alternating (1-->4) and (1-->6) linkages, found for the first time in Nature. This structure can be classified as a pullulan, which has been isolated from the fungi Aureobasidium pullulans, Tremella mesenterica, and Cyttaria harioti, but has different ratios of the component glycosidic linkages. The significance of the presence of the isolated alpha- and beta-glucans is discussed.     

Structural studies of the capsular polysaccharide of Klebsiella type 28

The capsular polysaccharide from Klebsiella type 28 has been studied by methylation analysis, a modified Smith-degradation procedure, and uronic acid degradation with subsequent oxidation and elimination of the substituents of the oxidized residue. The polysaccharide contained the hexasaccharide repeating-unit shown below. The terminal D-glucopyranose residue was hydrolysed by emulsin, indicating a β linkage. The anomeric natures of other glycosidic linkages were determined by characterization of fragments obtained during the degradative studies. The D-galactopyranose residue was not present in any fragment, but is assumed to be α-linked from optical-rotation considerations.

     

Structural studies on the capsular polysaccharide of klebsiella strain 6412

The structure of the capsular polysaccharide from klebsiella strain 6412 has been investigated by methylation analysis and smith degradation. The anomeric natures of the glycosidic linkages were determined from the optical rotations and n.m.r. spectra of original and degraded materials. The polysaccharide contained the tetrasaccharide repeating-unit shown below.     

Structural differences in fructans elaborated by streptococcus mutans and Strep. salivarius.

D-Fructans synthesized from sucrose by cell-free systems of strains of Streptococcus mutans and Strep. salivarius have been shown by methylation and enzymatic studies to have different glycosidic linkages. The cold water-insoluble D-fructans from Strep. mutans strain BHT and JC-1 have inulin-type structures consisting beta-(2 leads to 1)-D-fructofuranosidic linkages, with average repeating units of 8 and 27 sugar residues, respectively, whereas the water-soluble fructan from Strep. salivarius strain HHT has a levan-type branched structure consisting beta-(2 leads to 6)-D-fructofuranosidic linkages with an average repeating unit of 9 sugar residues. The solubility properties of these fructants are discussed on the basis of the structural differences.     

Chemistry of the polysaccharides of the diatom Coscinodiscus nobilis

The extracellular polysaccharide of Coscinodiscus nobilis, a member of the Coscinodiscaceae, contains a highly branched heteropolysaccharide(s) containing fucose, rhamnose, mannose, d-glucose, xylose, d-glucuronic acid, galactose (trace) and half ester sulphate. The positions of linkages between the monosaccharides have been established and evidence for the linkages between d-glucuronic acid and monosaccharides was obtained. The extracellular polysaccharide contained also a chrysolaminaran, but this may have been derived from dead cells. Fucose and mannose occur also in a separate polymer. The diatom contained polysaccharide material consisting of glucose, mannose, fucose and uronic acid residues.     

Molecular structures for microbial polysaccharides. X-ray diffraction from the capsular polysaccharide of Klebsiella K-type 5

Fibre Type X-ray diffraction patterns have been obtained from oriented, semicrystalline films prepared from the sodium salt form of the capsular polysaccharide of K5. The molecule has a linear trisaccharide repeating sequence containing a 1,3 linked β-d-glucuronic acid and a 1,4 linked β-d-glucose residue, resulting in a backbone linkage geometry of Man(1 eq-4e1)-GIcUA (1-eg-4eg) Gle (1 eq-3 eq) Man. It also contains an O-acetyl group and two charged groups, namely a uronic acid and a pyruvate. Analysis of the diffraction results gives rise to an extended two-fold helical conformation with an axially projected advance of 1.35 nm which correlates directly with the covalent repeating sequence. X-ray diffraction patterns from preparations of deacetylated K5 polysaccharide showed similar conformations for the individual helices but the interchain packing arrangements are different. In each case, isolated helices have been computer generated using molecular model building procedures and the most favourable conformations for both preparations were those which contained three stabilizing interresidue hydrogen bonds, one across each of the glycosidic linkages.     

Comparative study of acidic glycosphingolipids by field desorption and secondary ion mass spectrometry

Acidic glycosphingolipids were analyzed by field desorption (FD-MS) and secondary ion mass spectrometry (SI-MS) using the primary ion Xe+ with a glycerol matrix. In the analysis of underivatized gangliosides by FD-MS, the fragment corresponding to the asialo residue resulting from the cationized cluster ion (M + Na)+ was the base peak, and ions due to cleavage at the glycosidic linkages were detected, as in the neutral glycosphingolipids. In the case of sulfatide, the ceramide fragment showed the highest intensity in the spectrum. In SI-MS spectra of acidic glycosphingolipids, (M + Na)+, (M + 2Na-H)+, and (M + K)+ were continuously detected as relatively high intensity ions during analysis of gangliosides and sulfatide. Other ions were mostly similar to those obtained by FD-MS. In FD-MS spectra of permethylated gangliosides, the cationized molecular ion (M + Na)+ was the base peak, and fragment ions due to asialo gangliosides were prominent. Other peaks were hard to detect. In SI-MS, molecular ions (M + H)+ and (M + H-32)+ and other ions due to cleavage of the glycosidic linkages were clearly detected. In this case, the sensitivity was greatly improved. Ions due to the non reducing end sugars were clearly detected, because of the relatively low intensity of ion peaks due to the glycerol matrix. It is concluded that the combination with FD-MS and SI-MS is particularly useful for the determination of molecular weight, sugar sequence and ceramide structure with sample amounting to only a few micrograms order.     

Klebsiella serotype-13 capsular polysaccharide: primary structure and depolymerization by a bacteriophage-borne glycanase

Periodate oxidation and Smith degradation, methylation analysis including uronic acid degradation, partial hydrolysis with acid, bacteriophage degradation, and p.m.r. spectroscopy have been used to elucidate the primary structure of the Klebsiella serotype-13 capsular polysaccharide. The polymer consists of pentasaccharide repeating-units comprising a 4)-beta-D-Manp-(1 leads to 4)-alpha-D-Glcp-(1 leads to 3)-beta-D-Glcp-(1 leads to chain with a 3,4-O-(1-carboxyethylidene)-beta-D-Galp-(1 leads to 4)-alpha-D-GlcAp-(1 leads to branch at position 3 of the mannose. It is shown that there is a glycanase activity associated with particles of Klebsiella bacteriophage No. 13, which catalyses hydrolysis of chain beta-D-Glcp-(1 leads to 4)-beta-D-Manp linkages in the type-13 polysaccharide. The chemical basis of some serological cross-reactions of the Klebsiella K13 antigen is discussed.     

Oligosaccharide sequence determination using B/E linked field scanning or tandem mass spectrometry of phosphatidylethanolamine derivatives

Product ion mass spectral data of [M + H]+ ions of oligosaccharides, mainly tetra- and pentasaccharides, as their dipalmitoyl phosphatidylethanolamine derivatives were obtained using both liquid secondary ion mass spectrometry with B/E linked scanning and fast atom bombardment ionization with collision-induced dissociation/tandem mass spectrometry. Both methods give similar positive product ion spectra of equivalent high sensitivity (detection limits of approximately 50 pmol) that principally contain glycosidic cleavage ions retaining the reducing end of the molecule from which monosaccharide sequence can be deduced. A series of ions from fission of the phosphate ester bond together with glycosidic cleavage are present in the tandem mass spectra and B/E linked scan spectra when helium collision gas is used. Monosaccharide linkage position of isomeric molecules is reflected in the intensity of glycosidic fragmentation, without retention of the oxygen atom, with decreasing cleavage in the order 1-3 greater than 1-4 greater than 1-6 linkage. Fucose and N-acetylhexosamines show an increased degree of fragmentation over hexose sugars. The application of product ion spectra of derivatized oligosaccharides is demonstrated for characterizing mixed samples and also the acquisition of spectra directly from the silica surface of high-performance thin-layer chromatography plates.     

The characterization of a chitin-associated D-glucan from the cell walls of Aspergillus niger

Exhaustive extraction of the cell walls of Aspergillus niger with 10% NaOH solution leaves an alkali-resistant residue containing chitin and glucan as the major components. The glucan in this residue comprises 58.7% of the total cell wall glucan and was characterized by permethylation, and identification of the resulting $\text{O-}\text{methyl-}\text{D}\text{-glucoses}$ obtained after hydrolysis by gas-liquid chromagtography and mass spectrometry of the derived partially acetylated, partially methylated, [1-²H]alditols. The glucan was separated from the chitin by acetylation of the alkali-resistance material, a procedure which separates a large portion of the total glucan as a chloroformsoluble acetate, abd by treatment of the alkali-insoluble residue with nitrous acid, a procedure which was found to render the complex soluble in dimethylsulfoxide and amenable, therefore, to permethylation. The data collected suggests that the preparation is an essentially linear glucan containing 85–95% 1 → 3 linkages and 10–15% 1 → 4 linkages. An analysis of the glycosidic linkages using NMR spectroscopy indicate that both α and β linkages are present in the ratio of 4:1. An identical glucan appears to be present in the cell walls of Penicillium chrysogenum as well as the spore cell walls of both organisms, as evidenced by methylation studies.     

Degradation of polysaccharides containing uronic acid residues

A method for the selective degradation of polysaccharides containing uronic acid residues is described. It involves methylation of hydroxyl and carboxyl groups, base-catalysed elimination, and mild hydrolysis with acid. The degraded product is etherified with trideuteriomethyl or ethyl groups and hydrolysed, and the resulting mixture of etherified sugars is analysed, as the alditol acetates, by g.l.c.—m.s. Comparison of this analysis with the methylation analysis of the original polysaccharide gives information on the nature of the sugar residues on either side of the uronic acid residue.     

Mass spectrometry of derivatives of cyclopropene fatty acids

Diketo fatty acids prepared by ozonization of cyclopropene fatty acids have been separated and purified by chromatographic techniques. Mass spectra of esters of these compounds and of methanethiol adducts of cyclopropene acid esters are reported and interpreted. Location of the ring from examination of mass spectra of these derivatives appears to be a straightforward matter.     

Isolation and analysis of cell wall material from beeswing wheat bran (Triticum aestivum)

Cell wall material (CWM) isolated from beeswing wheat bran contains 66% carbohydrate, 12% Klason lignin, 6% protein and 4% ash. The relative proportions of sugars in the CWM are arabinose 34%, xylose 26%, galactose 2%, glucose 32% and uronic acid 6%. The uronic acid was shown to consist of glucuronic acid and its 4-O-Me analogue in the ratio 1.8:1. Partial acid hydrolysis of the CWM yielded neutral sugars and a uronic acid fraction. The latter was shown to contain Glc p A-(1→2)-Xyl p and Glc p A-(1→2)-O-Xyl p-(1→4)-Xyl p and their 4-O-Me substituted uronic acid analogues. Methylation analysis of the whole CWM and partially degraded methylated CWM revealed the nature of the constituent glycosidic linkages. From the combined evidence we infer that the major structural features of the non-cellulosic polysaccharides are a linear chain of xylopyranose units joined by (1→4)-linkages, and arabinofuranose, xylose, galactose (and uronic acid) end groups, which in at least some of the polysaccharides, are attached directly by (1→2)- and/or (1→3)-linkages to the xylan chain. The CWM has been fractionated by successive extractions with water at 80°, 0.2 M (NH₄)₂C₂O₄ at 80°, Na chlorite/HOAc at 70°, 0.2 M (NH₄)₂C₂O₄ at 80°, 1 M and 4 M KOH, and the neutral sugar composition of the fractions determined. It is concluded from these and other experiments that the CWM contains two main types of polysaccharides, the arabinoxylans and cellulosic polymers, and that phenolic ester linkages play a role in holding them together.     

Polysaccharides and glycoproteins of apple fruit cell walls

A proportion of the polysaccharides and glycoproteins of apple fruit cell walls can be readily extracted in neutral buffer at or below 20°. Removal of more material was not achieved with a wide range of dissociative aqueous reagents or non-aqueous solvents. Thus traditional degradative extractants were used to obtain soluble components for further characterization. Polysaccharides and glycoproteins were separated and purified by chromatography on DEAE-cellulose columns and by gel filtration. Purified components were hydrolysed and analysed for neutral sugar and uronic acid content and for their amino acid and hydroxyproline content. The possibility of linkages existing in the cell wall between polyuronide and glycoproteins containing hydroxyproline, arabinose and galactose residues is discussed. Because of aggregation between these components, which occurs after extraction, the presence of such linkages in vivo is difficult to establish. Other cell wall glycoproteins containing xylose and glucose residues are thought to have a possible role in stabilizing hemicellulose structure.     

Kinetic and substrate binding analysis of phosphorylase b via electrospray ionization mass spectrometry: a model for chemical proteomics of sugar phosphorylases

As a general strategy for determining the chemical function of the class of enzymes that cleaves glycosidic linkages with phosphate, the first mass spectrometry and direct detection assay for sugar phosphorylases has been developed and used to study the inhibition and minimal binding requirements of rabbit muscle phosphorylase b. In contrast to the currently employed assays for these enzymes that measure the nonphysiologically relevant reverse reaction of glycosidic bond synthesis and thereby require prior knowledge of not just one but two sugar components, this new method has the potential to greatly reduce the complexity in discovering the substrate specificity of a new enzyme. Certain phosphorylases can catalyze the degradation of glycogen into alpha-D-glucose-1-phosphate and are targets for the development of antidiabetic therapeutics. By electrospray ionization mass spectrometry analysis, the kinetic parameters K(m), V(max), and K(i) (for alpha/beta-D-glucose) have been determined for the rabbit muscle phosphorylase b. This enzyme accepts maltoheptaose, maltohexaose, and maltopentaose as substrates in the direction of glycogen degradation, but the tetrasaccharide maltotetraose cannot serve as a substrate for this phosphorylysis reaction.     

Polar components of Black sea seaweed Colpomenia peregrina (Sauv.) Hamel

GC-MS of trimethylsilyl derivatives of the compounds present in the butanolic extract of biomass of brown seaweed Colpomenia peregrina from the Black Sea aided in identification of 24 components, including aliphatic hydroxy and keto and aromatic acids, glycerol, mannitol, floridoside, and monosaccharides. The polysaccharide composition of the biomass was also studied, with high sodium alginate and laminaran contents and a comparatively low level of fucoidan being revealed. The polysaccharides were isolated from the biomass by fractional extraction and purified by precipitation or ion exchange chromatography. The structures of alginic acid and laminaran were deduced from 13C NMR spectra and confirmed, in the case of laminaran, by methylation analysis. The sodium alginate was shown to contain more guluronic (G) than mannuronic acid (M) residues, the M/G ratio being 0.48. Laminaran was demonstrated to be a beta-glucan with 1-->3 linkages in its backbone and 1-->6 linkages in its branching points, which is characteristic of brown algae. Fucoidan turned out to be a complex heteropolysaccharide containing, in addition to fucose and sulfate, other neutral monosaccharides and uronic acids. The English version of the paper: Russian Journal of Bioorganic Chemistry, 2004, vol. 30, no. 2; see also http://www.maik.ru     

Investigation of the occurrence of xylan-xyloglucan complexes in the cell walls of olive pulp (Olea europaea)

Previously we reported the possible occurrence of a complex containing glucuronoxylan and xyloglucan in the cell walls of olive pulp. In order to investigate the nature of this complex, the 1 M KOH (1 °C)-soluble polysaccharides in which it was prevalent, were separated by graded ethanol precipitation followed by anionexchange chromatography. A slightly acidic fraction was obtained and, by methylation analysis, glycosidic linkages typical of both xylan and xyloglucan were detected. Two distinct populations of the xylan-xyloglucan complexes were resolved by gel-filtration chromatography (2000 and 100 kDa) and the structural features were determined by methylation analysis. Cross-linking of the xylan-xyloglucan moieties was investigated by digestion of the xylan component with a purified, specific, endoxylanase. Although only the xylan element was digested, as verified by methylation analysis, the molecular weight of the xyloglucan moiety was also reduced. This confirmed that the xylan and xyloglucan moieties were strongly attached. The occurrence and structure of the xylan-xyloglucan complexes in the olive pulp cell walls is discussed.