Fig. 2
From: Propedia: a database for protein–peptide identification based on a hybrid clustering algorithm
a Propedia scheme. The user accesses Propedia through a browser. Propedia presents each protein–peptide as a complex. Each complex can be associated with a cluster based on sequence, interface or binding site. b Propedia interface. Three-dimensional structure visualization of a complex. Protein is shown as a cartoon (alpha-helix in magenta and beta-strands in orange). The peptide is shown as a cartoon with cyan sticks. Complex information includes receptor features, peptide features, clustering classification and similar complexes. c–e Sequence, interface and binding site, cluster pages. Sequence cluster containing the sequence WebLogo (consensus) and main sequence. Each cluster page has a distribution chart (boxplot), used to filter complexes, according to the attributes used for clustering: sequence identity, iRMSD and alignment score