I am looking for a solid set of features that can be extracted from protein sequences. Ideally these features capture different, and diverse aspects of the chemistry of the proteins. I do not care about the specific features, - but I would need features / predictions, which are quite accepted.

While I noted that some webpages list collections of various bioinformatic tools for that purpose (e.g.: http://www.expasy.org/proteomics ) , I was wondering, which tools experienced bioinformaticians would consider to be trustworthy, useful and solid for general-purpose comparison on metazoan proteomes (especially if different tools seem to serve the same purpose)