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==Description== | ==Description== | ||
- | The GPM can | + | The GPM can be used to find instances of proteins with Single Amino acid Variants (SAVs). |
==Examples== | ==Examples== | ||
- | The page, [http:// | + | The page, [http://sav.thegpm.org/thegpm-cgi/dblist_protein_mut.pl dblist_protein_mut.pl] requires a protein accession number (e.g., '''ENSP00000343690''', '''YGR254W''') as input. Example output can be seen [http://sav.thegpm.org/thegpm-cgi/dblist_protein_mut.pl?label=ENSP00000343690 here] for accession ENSP00000343690 and [http://sav.thegpm.org/thegpm-cgi/dblist_protein_mut.pl?label=YGR254W here] for accession YGR254W. |
==Data== | ==Data== | ||
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#'''delta''': The difference between the measured mass and the theoretically derived mass of the peptide. | #'''delta''': The difference between the measured mass and the theoretically derived mass of the peptide. | ||
#'''z''': The measured charge of the ion. | #'''z''': The measured charge of the ion. | ||
- | #''' | + | #'''SAV''': A listing of the original residue, its position in the protein and the resulting residue in HGVS notation as well as the reference accession number of the variant, when available. |
#'''peptide''': A clickable link showing the peptide sequences associated with this protein. Clicking the link will open the peptide details page for that specific identification. Also included is the number of identifications of this peptide in GPMDB. | #'''peptide''': A clickable link showing the peptide sequences associated with this protein. Clicking the link will open the peptide details page for that specific identification. Also included is the number of identifications of this peptide in GPMDB. | ||
Contents |
The GPM can be used to find instances of proteins with Single Amino acid Variants (SAVs).
The page, dblist_protein_mut.pl requires a protein accession number (e.g., ENSP00000343690, YGR254W) as input. Example output can be seen here for accession ENSP00000343690 and here for accession YGR254W.
The data returned by the search is ordered by the location of the mutation. The columns returned are:
The peptide sequence may be followed by the text "(N more)". This means that more than one observation of this peptide sequence has been identified with a specific mutation. Clicking on the text will display the other peptide details, sorted by worsening log(e) score.
Please read Modified Protein Search.