Automated interpretation of low-energy collision-induced dissociation spectra by SeqMS, a software aid for de novo sequencing by tandem mass spectrometry

peer-reviewed · Electrophoresis · 2000

peer-reviewed · Electrophoresis · 2000. Jorge Fernández-de-Cossío et al. SeqMS, a software aid for de novo sequencing by tandem mass spectrometry (MS/MS), which was initially…
Date 2000-05-01
Type peer-reviewed
Venue Electrophoresis
Publisher Wiley
Contribution algorithm
DOI 10.1002/(SICI)1522-2683(20000501)21:9<1694::AID-ELPS1694>3.0.CO;2-W
Citations (OpenAlex) 72
Venue 2-year citedness 2.20

Abstract

SeqMS, a software aid for de novo sequencing by tandem mass spectrometry (MS/MS), which was initially developed for the automated interpretation of high-energy collision-induced dissociation (CID) MS/MS spectra of peptides, has been applied to the interpretation of low-energy CID and post-source decay (PSD) spectra of peptides. Based on peptide backbone fragmented ions and their related ions, which are the dominant ions observed in the latter two techniques, the types of ions and their propensities to be observed have been optimized for efficient interpretation of the spectra. In a typical example, the modified SeqMS allowed the complete sequencing of a 31-amino acid synthetic peptide, except for the isobaric amino acids (Leu or Ile, and Lys or Gln), based on only the low-energy CID-MS/MS spectrum.

Authors

  1. Jorge Fernández-de-Cossío · Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine, Center for Genetic Engineering and Biotechnology, Centro de Ingeniería Genética y Biotecnología, Institute for Research in Biomedicine, Karolinska Institutet, Osaka University, Parc Científic de Barcelona, Universitat de Barcelona
  2. Luis Javier González · Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine, Center for Genetic Engineering and Biotechnology, Centro de Ingeniería Genética y Biotecnología, Institute for Research in Biomedicine, Karolinska Institutet, Parc Científic de Barcelona, Universitat de Barcelona
  3. Yoshinori Satomi · Osaka University
  4. Takaki Shima · Osaka University
  5. Nobuaki Okumura · Osaka University
  6. Vladimir Besada · Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine, Center for Genetic Engineering and Biotechnology, Centro de Ingeniería Genética y Biotecnología, Institute for Research in Biomedicine, Karolinska Institutet, Parc Científic de Barcelona, Universitat de Barcelona
  7. Lázaro Betancourt · Biomedical Research Networking Center in Bioengineering, Biomaterials and Nanomedicine, Center for Genetic Engineering and Biotechnology, Centro de Ingeniería Genética y Biotecnología, Institute for Research in Biomedicine, Karolinska Institutet, Parc Científic de Barcelona, The University of Osaka, Universitat de Barcelona
  8. Gabriel Padrón · Center for Genetic Engineering and Biotechnology, Centro de Ingeniería Genética y Biotecnología
  9. Yasutsugu Shimonishi · Osaka University, The University of Osaka
  10. Toshifumi Takao · Osaka University, The University of Osaka

Methods and tools

  • SeqMS: Software aid for automated interpretation of low-energy CID spectra for de novo sequencing by tandem MS.

Cites (4)

Cited by (22)

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