ArticleJournal of the American Society for Mass Spectrometry2011
Effect of the identity of Xaa on the fragmentation modes of doubly-protonated Ala-Ala-Xaa-Ala-Ala-Ala-Arg.
Article in Journal of the American Society for Mass Spectrometry, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed, 7 citations in OpenAlex.
- N-terminal peptide sequence repetition influences the kinetics of backbone fragmentation: a manifestation of the Jahn-Teller effect?Journal of the American Society for Mass Spectrometry · 2013Article
- Carbonyl charge solvation patterns may relate to fragmentation classes in collision-activated dissociation.Journal of the American Society for Mass Spectrometry · 2012Article
- Calculations of relative intensities of fragment ions in the MSMS spectra of a doubly charged penta-peptide.BMC bioinformatics · 2012Article
- Pathways for water loss from doubly protonated peptides containing serine or threonine.Journal of the American Society for Mass Spectrometry · 2012Article
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Authors and funding
1 author at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The product ion mass spectra resulting from collisional activation of doubly-protonated tryptic-type peptides Ala-Ala-Xaa-Ala-Ala-Ala-Arg have been determined for Xaa = Ala(A), Ser(S), Val(V), Thr(T), Ile(I), Phe(F), Tyr(Y), Sar, Met(M), Trp(W), Pro(P), and Gln(Q). The major fragmentation reaction involves cleavage of the second amide bond (counting from the N-terminus) except for Xaa = Ser and Thr where elimination of H(2)O from the [M + 2H](+2) ion forms the base peak. In general, the extent of cleavage of the second amide bond shows little dependence on the identity of Xaa and little dependence on whether the bond cleavage involves symmetrical bond cleavage to form a y(5)/b(2) ion pair or asymmetrically to form y (5) (+2) and a neutral b(2) species. Notable exceptions to this generalization occur for Xaa equal to Pro or Sar. For Xaa = Pro only cleavage of the second amide bond is observed, consistent with a pronounced proline effect, i.e., cleavage N-terminal to Pro. When Xaa = Sar considerably enhanced cleavage of the second amide bond also is observed, suggesting that at least part of the proline effect relates to the tertiary nature of the amide nitrogen. In the competition between symmetric and asymmetric bond cleavage an attempt to establish a linear free energy correlation in relating ln(y(5)(+2)/y(5)) to PA(H-Xaa-OH) did not lead to a reasonable correlation although the trend of increasing y(5)(+2)/y(5) ratio with increasing proton affinity of H-Xaa-OH was clear. Proline showed a unique behavior in giving a much higher y(5)(+2)/y(5) ratio than any of the other residues studied.
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