MALDI Top-Down sequencing: calling N- and C-terminal protein sequences with high confidence and speed

J Biomol Tech. 2009 Dec;20(5):258-62.

Abstract

The ability to match Top-Down protein sequencing (TDS) results by MALDI-TOF to protein sequences by classical protein database searching was evaluated in this work. Resulting from these analyses were the protein identity, the simultaneous assignment of the N- and C-termini and protein sequences of up to 70 residues from either terminus. In combination with de novo sequencing using the MALDI-TDS data, even fusion proteins were assigned and the detailed sequence around the fusion site was elucidated. MALDI-TDS allowed to efficiently match protein sequences quickly and to validate recombinant protein structures-in particular, protein termini-on the level of undigested proteins.

Keywords: Edman sequencing; MALDI-TOF; Top-down protein sequencing; protein QC.

MeSH terms

  • Algorithms
  • Computational Biology / methods
  • Databases, Protein
  • Fungal Proteins / chemistry
  • Protein Binding
  • Protein Structure, Tertiary
  • Proteins / chemistry
  • Recombinant Proteins / chemistry
  • Sequence Analysis, Protein / methods*
  • Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods*

Substances

  • Fungal Proteins
  • Proteins
  • Recombinant Proteins