Protein and peptide sequences are usually represented using a string of amino acids using a well-known one letter code endorsed by the IUPAC. However, there is still no clear consensus about how to represent ‘proteoforms’ and ‘peptidoforms’, meaning all possible variations of a protein/peptide sequence, including protein modifications, both artefactual and post-translational modifications (PTMs). There are indeed multiple ways of encoding mass modifications and extended discussion has taken place to achieve a consensus.
Public Documents Under Revision
After synchronized journal publication the specification document has been resubmitted on April 18th, 2018 and comments requesting changes by the three reviewers have been checked by the editor.
Document was finalized on April 5th, 2018.
1.) Original submission (after steering group review)
There has been a submission to the PSI Document Process by the Molecular Interactions workgroup updating the PSI-MI format to version 3.0.0 (from long-time stable XML 2.5, released 2005).