Thanks to Ingo and Peter for the quick and helpful replies. I've read through the discussion you had a year ago on this topic and it seems like it is still unresolved.
> The isoelectric point can be calculated for various conditions. When I > checked last, ExPASy's protparam was set up the isoelectric focus phase > of 2D gels under high urea conditions. It was unclear at the time where > to find all the values needed to reproduce their calculation. I have been reading through the literature referenced by ExPASy's documentation. The article does not give pK values for all N-terminal residues. I've asked ExPASy support about the pK values used for residues not listed in the paper. If you're interested, I can keep you updated regarding their response. > We would like to update EMBOSS's protein property calculations, possibly > with additional options or alternative parameter sets. If it's something you'd like to include in EMBOSS, I'd be willing to contribute to an additional option for pI calculation that uses ExPASy's pK values. Jake Rothenbuhler Bioinformatics Programmer/Analyst XOMA (US) LLC (510) 204-7452 -- The information contained in this email message may contain confidential or legally privileged information and is intended solely for the use of the named recipient(s). No confidentiality or privilege is waived or lost by any transmission error. If the reader of this message is not the intended recipient, please immediately delete the e-mail and all copies of it from your system, destroy any hard copies of it and notify the sender either by telephone or return e-mail. Any direct or indirect use, disclosure, distribution, printing, or copying of any part of this message is prohibited. Any views expressed in this message are those of the individual sender, except where the message states otherwise and the sender is authorized to state them to be the views of XOMA. _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss