RT Journal
A1 Binkley, Jonathan
A1 Karra, Kalpana
A1 Kirby, Andrew
A1 Hosobuchi, Midori
A1 Stone, Eric A.
A1 Sidow, Arend
T1 ProPhylER: A curated online resource for protein function and structure based on evolutionary constraint analyses
JF Genome Research 
JO Genome Research 
YR 2010 
FD January 01 
VO 20 
IS 1 
SP 142 
OP 154 
DO 10.1101/gr.097121.109 
UL http://genome.cshlp.org/content/20/1/142.abstract 
AB ProPhylER (Protein Phylogeny and Evolutionary Rates) is a next-generation curated proteome resource that uses comparative sequence analysis to predict constraint and mutation impact for eukaryotic proteins. Its purpose is to inform any research program for which protein function and structure are relevant, by the predictive power of evolutionary constraint analyses. ProPhylER currently has nearly 9000 clusters of related proteins, including more than 200,000 sequences. It serves data via two interfaces. The “ProPhylER Interface” displays predictive analyses in sequence space; the “CrystalPainter” maps evolutionary constraints onto solved protein structures. Here we summarize ProPhylER's data content and analysis pipeline, demonstrate the use of ProPhylER's interfaces, and evaluate ProPhylER's unique regional analysis of evolutionary constraint. The high accuracy of ProPhylER's regional analysis complements the high resolution of its single-site analysis to effectively guide and inform structure–function investigations and predict the impact of polymorphisms.