Difference between revisions of "IGEM:Creative Proteomics/2009/Notebook/N-terminal sequencing service/Entry Base"

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==Entry title==
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Although database search identification of proteins by mass  spectrometry is well established, the method does not apply if the protein  sequence does not exist in the current database. Therefore, de novo sequencing is  the only method for identifying novel peptides, unsequenced organisms, and antibodies  drugs, which database search methods were not able to detect. However, de novo  sequencing poses more challenging than the traditional database search  approach, such as, ambiguous assignments of fragment ions, insufficient product  ions generated in incomplete fragmentation leading to low sequence coverage and  difficulty in distinguishing ion series, notably '''N-terminal'''[http://www.creative-proteomics.com/services/de-novo-peptides-proteins-sequencing-service.htm] from C-terminal  MS/MS product ions (b ions from y ions).
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Latest revision as of 00:50, 7 September 2017

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Although database search identification of proteins by mass spectrometry is well established, the method does not apply if the protein sequence does not exist in the current database. Therefore, de novo sequencing is the only method for identifying novel peptides, unsequenced organisms, and antibodies drugs, which database search methods were not able to detect. However, de novo sequencing poses more challenging than the traditional database search approach, such as, ambiguous assignments of fragment ions, insufficient product ions generated in incomplete fragmentation leading to low sequence coverage and difficulty in distinguishing ion series, notably N-terminal[1] from C-terminal MS/MS product ions (b ions from y ions).