In:
PROTEOMICS, Wiley, Vol. 10, No. 6 ( 2010-03), p. 1196-1201
Abstract:
Recently, we introduced a novel proteomics method employing a metalloendopeptidase with Lys‐N specificity to produce proteolytic peptides. Fragmentation spectra generated by electron transfer dissociation, for a large proportion of the Lys‐N proteolytic peptides, were found to be dominated by extensive series of c‐type ions. Taking advantage of this unique spectral property, we developed an algorithm, LysNDeNovo , to facilitate de novo sequencing of these peptides. LysNDeNovo contains simple and naive heuristics to demonstrate a proof of concept, i.e . that Lys‐N peptide electron transfer dissociation spectra are perfectly suited for de novo interpretation. A stringent “golden” dataset of peptides identified by conventional database search algorithms was taken to validate the performance of LysNDeNovo . The results on this dataset indicate that LysNDeNovo was able to confidently identify a considerable proportion (42%), without requiring any prior genome or protein sequences. Results of similar quantity and quality could also be obtained on a much more extensive experimental dataset, illustrating the potential for higher throughput de novo sequencing using these methods.
Type of Medium:
Online Resource
ISSN:
1615-9853
,
1615-9861
DOI:
10.1002/pmic.200900405
Language:
English
Publisher:
Wiley
Publication Date:
2010
detail.hit.zdb_id:
2037674-1
SSG:
12