From Proteinfunction.net

AFP 2005

5 accepted articles for AFP 2005 were published in Protein Science

1. Enhanced automated function prediction using distantly related sequences and contextual association by PFP[1]
   
2. Recurrent use of evolutionary importance for functional annotation of proteins based on local structural similarit[2]
3. Structure-based function inference using protein family-specific fingerprints[3]
4. A categorization approach to automated ontological function annotation[4]
5. Functional annotation prediction: All for one and one for all [5] 
   

AFP 2006

The 2006 meeting was held at Atkinson Hall (CalIT2 building) at the campus of the University of California, San Diego. August 30 through September 1st.
Nineteen contributed talks, eight keynote speakers, twenty posters, about 100 attendees and three days of sunshine made for a very enjoyable and stimulating meeting.
Link to the information page : Here, meeting abstracts, entire program, streaming videos of the keynote talks, and pictures available.
Proceedings of 2006 AFP published by BMC Bioinformatics

AFP 2007

2007 Automated Function Prediction meeting will be held as SIG(Special Interesting Group) for ISMB 2007 in Vienna Austria. July 19-20, 2007.
An official announcement including abstract deadlines and submission process will be made soon.