Method for de novo peptide sequence determination
US6582965B1 · Oxford GlycoSciences · priority 1997
| Patent | US6582965B1 ↗ |
| Status | Expired - Fee Related |
| Priority date | 1997-05-22 |
| Filed | 1997-06-18 |
| Published (granted) | 2003-06-24 |
| Assignee | Oxford GlycoSciences (printed Oxford Glycosciences (UK) Ltd) |
| Also published as | AU7540398A, CA2290591A1, DE69812773D1, EP0887646A1, EP0887646B1, GB2325465A, GB9710582D0, GB9811196D0, JP2002505740A, WO1998053323A2, WO1998053323A3 |
Abstract
The present invention relates to a method for generating a library of peptides based on a peptide of a predetermined molecular mass and to a method of determining the amino acid sequence of the peptide from the library. A set of amino acids that can be present in the peptide are defined, and an allowed library of all possible sequences of the amino acids in the set having a total mass equal to the predetermined molecular mass, allowing for water lost in forming peptide bonds and for protonation, is generated. The allowed library may be generated by first generating a set of all combinations of amino acids having a total mass equal to the predetermined molecular mass of the peptide and then calculating all linear permutations of all amino acids in each such combination. Generally, the molecular mass is determined using a mass spectrometer. A theoretical fragmentation spectrum for every amino acid sequence in the allowed set may also be calculated for use in determining the amino acid sequence of the peptide. The fragmentation spectra may be of any type known in the art, such as a mass spectrum or a protease or chemical fragmentation spectrum. The theoretical fragmentation spectra calculated for each member of the allowed peptide library may be compared to an experimental fragmentation spectrum for the unknown peptide to determine the amino acid sequence of the unknown peptide.
Why it is here
Oxford GlycoSciences: de novo sequencing by scoring the spectrum against theoretical spectra of every sequence with the precursor’s mass. The earliest patent here (priority 1997).
Inventors (4)
Robert Reid Townsend, Raj Bhikhu Parekh, Sally Barbara Prime, Nick Sinclair Wedd
An inventor links to an author page only where the same person is evident, never on a name alone.
Catalogued papers it cites (4)
- PAAS 3: A computer program to determine probable sequence of peptides from mass spectrometric data (1984)
- Peptide sequence determination from high-energy collision-induced dissociation spectra using artificial neural networks (1995)
- Sequence database searches via de novo peptide sequencing by tandem mass spectrometry (1997)
- Automated interpretation of high-energy collision-induced dissociation spectra of singly protonated peptides by ‘seqms’, a software aid forde novo sequencing by tandem mass spectrometry (1998)
Matched from the patent’s 48 literature citations by the rules the paper citation graph uses.
Cited by (18 patent families, 15 organisations)
- Micromass company: CA2303758C, CA2303761C
- NEC company: JP3534191B1, JP4543929B2
- Oxford BioTherapeutics company: EP3118221B1, WO2011054007A1
- Basf Aktiengesellschaft company: AU2001269058A1
- Chugai Seiyaku Kabushiki Kaisha company: WO2008093762A1
- DH Technologies Development company: CN104718449B
- Hitachi High-Technologies company: JP2008039608A
- Institute for Systems Biology academic: US6829539B2
- MDS Inc. doing business through its MDS Sciex Division, Concord company: DE602004002856T2
- Mds Inc., Doing Business Through Its Mds Sciex Division company: WO2007079589A1
- Medical ProteoScope company: JP4541122B2
- Merck & Co. company: JP2006522340A
- Oxford Genome Sciences (Uk) company: WO2008104803A2
- Oxford Genome Sciences Uk company: GB0611116D0
- Shimadzu company: JP4841414B2
Every family, of any applicant, that cites this one, as Google Patents lists them; an assignee is given its English name.