Biomedical subjects

C Wesdemiotis

Publications and source records attributed to C Wesdemiotis.

15 recordsLinked to original sources

PubMed2001

Structural characterization of quinoxaline homopolymers and quinoxaline/ether sulfone copolymers by matrix-assisted laser desorption ionization mass spectrometry.

Polyphenylquinoxalines (PPQs) are prepared from self-polymerizable quinoxaline monomers that carry fluorine, hydroxyaryl (ArOH), and phenyl substituents. In basic media, these monomers self-polymerize via a series of nucleophilic aromatic substitution reactions (SNAr), in which aromatic enolates (ArO- nucleophiles) attack the electrophilic carbons bearing F leaving groups to effect fluoride displacement. Polyphenylquinoxaline/polyether-sulfone (PPQ/PES) copolymers are synthesized similarly by combining self-polymerizable quinoxaline monomers with a 1:1 molar mixture of 4,4'-dichlorodiphenyl sulfone and bisphenol A. The MALDI mass spectra of the polymers reveal that the major products up to approximately 15,000 Da molecular mass are homo- or copolymeric macrocycles. Linear byproducts are also observed, arising from nucleophilic ring opening of already formed macrocycles. Oligomers containing at least one PPQ unit readily protonate upon MALDI, whereas PES homopolymers require alkali metal ion addition to become detectable. Molecular orbital calculations point out that the nucleophilic and electrophilic reactivities of the PPQ monomer and the PPQ growing chains generated during propagation are comparable, allowing for continued condensations via SN-Ar, until cyclization terminates this process. The calculations also predict a significantly lower electrophilic reactivity for carbons substituted by chlorine instead of fluorine, justifying the discrimination against incorporation of PES units observed for the copolymers. The computationally optimized structures of PPQ and PPQ/PES macrocycles show a diverse array of cavity sizes and geometries which depend on the size of the macrocycle, the sequence of the repeat units, and the position of the substituents in the quinoxaline ring; quinoxaline pendants (phenyl groups) are found to favor helical arrangements in the prepared macrocycles.

Journal Article↗

PubMed2001

Complexes of Li atoms with formaldehyde (LiOCH2) and formaldimine (LiNHCH2): stability via electrostatic and charge transfer interactions.

The Li atom adducts of formaldehyde (LiOCH2) and formaldimine (LiNHCH2) are produced in the gas phase by neutralization of the corresponding cations. Subsequent reionization, ca. 0.3 micros later, shows that the nominally hypervalent complexes LiXCH2 (X=O or NH) are stable, residing in potential energy minima. In the time span between the neutralization and reionization events, the LiXCH2 molecules dissociate partly into their constituents, Li + XCH2, the fragmentation extent of LiNHCH2 being more extensive. Ab initio calculations reveal three bound states for both Li atom complexes. Two (states A and B) resemble C-centered radicals carrying an ion pair, Li+*(-)X-CH2*, and can be viewed as lithiated derivatives of the hydroxymethyl (HOCH2*) or aminomethyl (H2NCH2*) radical; the third state (C) represents a conventional, electrostatically bonded Li-X=CH2 complex with an essentially intact X=C double bond and the unpaired electron located at the metal atom. States A and B are bound more strongly than state C for LiOCH2; the opposite is true for LiNHCH2, where C is the most stable arrangement and B only marginally bound. The larger degree of dissociation observed for LiNHCH2 vis à vis LiOCH2 upon neutralization-reionization points out that the experiment samples a considerable amount of state B which is barely bound for LiNHCH2.

Journal Article↗

PubMed2000

First generation and characterization of the enol of glycine, H(2)N--CH=C(OH)(2), in the gas phase.

The enol of glycine, H(2)N-CH&dbond;C(OH)(2), is generated in the gas phase by neutralization of the corresponding radical cation, which is available by dissociative electron ionization of isoleucine. Reionization approximately 0.6 micros later shows that the isolated enol (2) exists and does not isomerize to the significantly more stable glycine molecule, H(2)N--CH(2)--COOH (1); hence the intramolecular tautomerization 2-->1 must be associated with high barriers. The neutralization-reionization reactivity of 1(+*) further confirms that neutral glycine has a canonical structure (1) and is not a zwitterion. The unimolecular chemistry of 1(+*) is dominated by C--C bond cleavage to the immonium ion (+)H(2)NCH(2); in sharp contrast, 2(+*) primarily loses H(2)O. The ylide ion (+)H(3)N--CH(*)--COOH, an intermediate in the water loss from 2(+*), is found to readily equilibrate to 2(+*) prior to dissociation. Tautomers 1(+*) and 2(+*) differ in their charge-stripping behavior, with only 2(+*) forming a stable dication. The radical anions 1(-*) and 2(-*), formed by charge reversal of 1(+*) and 2(+*), respectively, dissociate extensively to (mainly) different closed-shell fragment anions. An important channel is H(*) loss; 1(-*) yields the carboxylate ion H(2)N--CH(2)--COO(-) whereas 2(-*) yields the enolate ion H(2)N--CH=C(OH)O(-).

Chemical Phenomena↗

PubMed2000

Dissociation of the peptide bond in protonated peptides.

The dissociation of the amide (peptide) bond in protonated peptides, [M + H](+), is discussed in terms of the structures and energetics of the resulting N-terminal b(n) and C-terminal y(n) sequence ions. The combined data provide strong evidence that dissociation proceeds with no reverse barriers through interconverting proton-bound complexes between the segments emerging upon cleavage of the protonated peptide bond. These complexes contain the C-terminal part as a smaller linear peptide (amino acid if one residue) and the N-terminal part either as an oxazolone or a cyclic peptide (cyclic amide if one residue). Owing to the higher thermodynamic stability but substantially lower gas-phase basicity of cyclic peptides vs isomeric oxazolones, the N-terminus is cleaved as a protonated oxazolone when ionic (b(n) series) but as a cyclic peptide when neutral (accompanying the C-terminal y(n) series). It is demonstrated that free energy correlations can be used to derive thermochemical data about sequence ions. In this context, the dependence of the logarithm of the abundance ratio log[y(1)/b(2)], from protonated GGX (G, glycine; X, varying amino acid) on the gas-phase basicity of X is used to obtain a first experimental estimate of the gas-phase basicity of the simplest b-type oxazolone, viz. 2-aminomethyl-5-oxazolone (b(2) ion with two glycyl residues).

Journal Article↗

PubMed2000

Cation-pi effects in the complexation of Na+ and K+ with Phe, Tyr, and Trp in the gas phase.

Na+ and K+ gas-phase affinities of the three aromatic amino acids Phe, Tyr, and Trp were measured by the kinetic method. Na+ binds these amino acids much more strongly than K+, and for both metal ions the binding strength was found to follow the order Phe < or = Tyr < Trp. Quantum chemical calculations by density functional theory (DFT) gave the same qualitative ordering, but suggested a somewhat larger Phe/Trp increment. These results are in acceptable agreement with predictions based on the binding of Na+ and K+ to the side chain model molecules benzene, phenol, and indole, and are also in reasonable agreement with the predictions from purely electrostatic calculations of the side-chain binding effects. The binding energies were compared with those to the aliphatic amino acids glycine and alanine. Binding to the aromatic amino acids was found to be stronger both experimentally and computationally, but the DFT calculations indicate substantially larger increments relative to alanine than shown by the experiments. Possible reasons for this difference are discussed. The metal ion binding energies show the same trends as the proton affinities.

Cations, Monovalent↗

PubMed1999

Proton affinities of the N- and C-terminal segments arising upon the dissociation of the amide bond in protonated peptides.

Dissociation of the amide bonds in a protonated peptide leads to N-terminal sequence fragments with cyclic structures and C-terminal sequence fragments with linear structures. The ionic fragments containing the N-terminus (bn) have been shown to be protonated oxazolones, whereas those containing the C-terminus (Yn) are protonated linear peptides. The coproduced neutral fragments are cyclic peptides from the N-terminus and linear peptides from the C-terminus. A likely determinant of these structural choices is the proton affinity (PA) of the described peptide segments. This study determines the PA values of such segments (Pep), i.e., cyclic and linear dipeptides and a relevant oxazolone, based on the dissociations of proton-bound dimers [Pep + Bi]H+ in which Bi is a reference base of known PA value (Cooks kinetic method). The dissociations are assessed at different internal energies to thereby obtain both proton affinities as well as entropies of protonation. For species with comparable amino acid composition, the proton affinity (and gas phase basicity) follows the order cyclic peptide << oxazolone approximately linear peptide. This ranking is consistent with dissociation of the protonated peptide via interconverting proton-bound complexes involving N-terminal oxazolone (O) or cyclopeptide (C) segments and C-terminal linear peptide segments (L), viz. O...H+...L reversible C...H+...L. N-terminal sequence ions (bn) are formed with oxazolone structures which can efficiently compete for the proton with the linear segments. On the other hand, N-terminal neutral fragments detach as cyclic peptides, with H+ now being retained by the more basic linear segment from the C-terminus to yield Yn.

Algorithms↗

PubMed1999

Unknown identification using reference mass spectra. Quality evaluation of databases.

The high success of the "uncertified" mass spectrometry spectral collection started in 1956 demonstrated qualitatively that a partial reference mass spectrum, even one measured routinely, can be of real value. Correct matchings were still possible despite reference errors, which almost never led to close matches that were incorrect. This study shows quantitatively that the number of different compounds, not the number of peaks in a spectrum, is by far the most important determinant of database efficiency for identifying a "global" unknown. A statistical evaluation of matching performance shows that only 6, 12, and 18 peaks in a reference spectrum are 13%, 67%, and 96%, respectively, as valuable as hundreds of peaks. Also, a separately measured second spectrum of the same compound is 50% as valuable as the first. Database expansion that tripled the number of possible wrong answers only reduced the proportion of correct identifications by 5%. Corrections of a mass or abundance error in each of six reference spectra increase the database matching performance by as much as the addition of one spectrum of a new compound. A new "matching quality index" based statistically on these values indicates that the largest database is also by far the most effective for matching unknowns.

Animals↗

PubMed1997

Mapping the mechanism-based modification sites in L-aspartase from Escherichia coli.

Inactivation of the enzyme L-aspartase from Escherichia coli by the substrate analog aspartate beta-semialdehyde has previously been shown to occur by the mechanism-based conversion to the corresponding product aldehyde, followed by covalent modification of cysteine-273 (F. Giorgianni et al. (1995) Biochemistry 34, 3529). Inactivation by the product analog, fumaric acid aldehyde (FAA), has now been examined directly by adding a reduction step to the modification protocol in order to stabilize the resulting enzyme-FAA derivative(s). HPLC and mass spectrometric analyses of proteolytic digests of inactivated L-aspartase have confirmed the modification at cysteine-273, and have also identified an additional modified peptide. The inactivation at this additional site involves a crosslink between cysteine-140 and an adjacent lysine. Site-directed mutagenesis studies have shown that cysteine-140 is a very reactive and accessible nucleophile that is not, however, directly involved in enzyme activity. The adjacent lysine-139 that is modified does appear to play a role in substrate binding. A double mutant in which both of the reactive cysteines have been replaced is almost completely insensitive to modification by these substrate and product analogs.

Aspartate Ammonia-Lyase↗

PubMed1996

Characterization of neutral fragments in tandem mass spectrometry: a unique route to mechanistic and structural information.

The neutral species eliminated upon fragmentation of fast-moving mass-selected ions can be directly identified by collisional ionization and detection in neutral fragment reionization (Nf R) mass spectra. Establishment of the identity of neutral fragments yields valuable insight into the decomposition mechanism of a precursor ion, as demonstrated for fullerene and alkali metal iodide cluster ions as well as metal ion adducts of amino acids. In addition, neutral fragment reionization also provides structural information that may not be available from the complementary ionic fragments alone; this is illustrated in the differentiation of isomeric mononucleotides. The parameters influencing the appearance of Nf R spectra are discussed and the scope and general applicability of the method are briefly evaluated.

Alanine↗

PubMed1996

Differentiation of N-from C-protonated aniline by neutralization-reionization.

Amino- and ring-protonated aniline are distinguished in the gas phase by neutralization-reionization mass spectrometry. This method takes advantage of the dramatically different stabilities and reactivities of the neutralized forms of N- and C-protonated aniline, to ascertain thereby the specific protonation site(s). Fast atom bombardment ionization of aniline is found to yield primarily the anilinium cation (N-protonated tautomer). In contrast, chemical ionization with a variety of reagent gases is shown to generate mixtures in which the ring-protonated species predominates.

Aniline Compounds↗

PubMed1996

Distonic ion .CH2CH2SCH2+ and the isomeric trimethylene and propylene sulfide radical cations. Assessment of structures and reactivities via decomposition and redox reactions.

The distonic radical ion .CH2CH2SCH2+ (1+.), generated by dissociative electron ionization of 1,4-dithiane or 1,4-thioxane, is identified in the gas phase by its collisionally activated dissociation (CAD), neutralization -reionization (+NR+) and charge-reversal (+CR-) mass spectra. The unimolecular chemistry of 1+. is shown to be substantially different from that of the isomeric, ring-closed, trimethylene sulfide ion (2+.). Hence, a substantial isomerization barrier must separate 1+. from the thermodynamically more stable 2+.. Charge permutation (i.e. charge-stripping, +NR+ and +CR-) are far superior, compared to collision-induced fragmentation, for distinguishing 1+. from 2+., mainly because the oxidized (1++ and 2++) and reduced forms (1 and 2 as well as 1-. and 2-.) of these cations have much lower tendencies for isomerization that 1+. and 2+. themselves. The diradical .CH2CH2SCH2. (1), formed by neutralization of 1+., is found to exist as a bound species, requiring appreciable activation energies for both decomposition to CH2CH2 plus SCH2 and ring-closure to 2. The dissociations and redox reactions of the propylene sulfide ion (3+.) are also assessed in this study and clearly indicate that 3+. is a stable C3H6S+. isomer. Further, the C3H6S+. ions from thiane, 1,3-dithiane and 2-methyl-1,3-dithiane are characterized based on their combined CAD, +NR+ and +CR- spectra. The two 1,3-dithianes produce ionized trimethylene sulfide, 2+.. In contrast, thiane gives rise to a C3H6S+. isomer other than 1+.(-3t); the data strongly suggest that this isomer is the 1-propene-1-thiol radical cation, namely CH3CH = CH-SH+..

Cations↗

PubMed1995

Elimination of the sensitivity of L-aspartase to active-site-directed inactivation without alteration of catalytic activity.

The catalytic activity of the enzyme L-aspartase from Escherichia coli has previously been shown to be sensitive to sulfhydryl reagents. The use of group-specific reagents, and a sequence homology comparison study among the fumarase-aspartase family of enzymes, has not, however, lead to the identification of a specific, essential cysteinyl residue. We have recently shown that L-aspartate-beta-semialdehyde is an alternative substrate for L-aspartase, producing fumaric acid semialdehyde (FAA) which specifically inactivates the enzyme [Schindler, J. F., & Viola, R. E. (1994) Biochemistry 33, 9365]. Proteolytic digests of the resulting inactivated enzyme have now been mapped by HPLC and mass spectrometry. A specific residue (Cys-273) has been determined to be the site of FAA modification. Site-directed mutagenesis of this cysteine in the E. coli enzyme has produced altered enzymes which are considerably less sensitive to active-site-directed inactivation, while retaining full catalytic activity. Thus, cysteine-273 has been identified as an active-site nucleophile that, while not directly involved in catalysis in L-aspartase, is poised to attack an activated double bond in an enzyme-bound product analogue.

Amino Acid Sequence↗

PubMed1994

Characterization of the neutral products formed upon the charge-remote fragmentation of fatty acid ions.

Collisionally activated dissociation (CAD) of the carboxylate anions, [M-H]-, or dilithiated cations, [M-H+2Li]+, from fatty acids results in charge-remote fragmentations at the alkyl chain C-C bonds leading to structure-indicative fragment ions. The neutral molecules eliminated during these reactions are characterized in this study using neutralization-reionization mass spectrometry (NRMS). The major neutral losses detected are alkenes (or dienes, in the case of monounsaturated fatty acids), not alkanes or alkyl radicals. This is consistent with the initially proposed mechanism proceeding by a pericyclic 1,4-elimination of H2.

Fatty Acids↗

PubMed1994

Generation and characterization of dihydroxycarbene, HO-C-OH, by neutralization/reionization mass spectrometry.

Dihydroxycarbene is produced in the gas phase by neutralization of the HO-C-OH+. radical cation which is formed by dissociative electron ionization of oxalic acid. Reionization approximately 0.3 microseconds later shows that HO-C-OH can survive intact and, thus, exists as a stable species with appreciable barriers for dissociation or rearrangement to formic acid (HCOOH). Within the time scale of the experiment, a small fraction of the carbene decomposes to H2O+CO. Comparison of the experimental results with ab initio theory shows that the dissociating HO-C-OH molecules are generated in the electronically excited triplet state, while the large amount of surviving carbene molecules is formed in the singlet ground state.

Mass Spectrometry↗

PubMed1993

The neutral products formed during backbone fragmentations of protonated peptides in tandem mass spectrometry.

Collisionally activated dissociation (CAD) of the protonated polyalanines Ala-Ala,Ala-Ala-Ala, and Ala-Ala-Ala-Ala causes breakup of the peptide bonds leading to sequence-indicative fragment ions. The neutral molecules eliminated during these reactions are identified here using neutralization-reionization mass spectrometry (NRMS). N-terminal acylium ions (bn) arise after the C-terminus is lost as an intact amino acid or peptide; further loss of CO leads to immonium ions (an). Upon generation of C-terminal sequence ions (yn), a hydrogen atom attached to a nitrogen rearranges from the N-terminal to the C-terminal side yielding a protonated amino acid (y1) or peptide (y > or = 2) as the ionic fragment; the complementary neutral fragment is an aziridinone if the N-terminal amino acid is cleaved and a diketopiperazine if two N-terminal amino acid units are eliminated. Detection of neutral dissociation products can reveal valuable structure information, as demonstrated with the tetrapeptides Val-Gly-Ser-Glu and Val-Gly-Asp-Glu.

Amino Acid Sequence↗