Fig. 5.

Network and sequence view for predicted E3-substrate interactions in UbiBrowser web services. In network view the central node is the queried E3 ligase or substrate, and the surrounding nodes are the predicted substrates or corresponding E3s. In the confidence mode of network view, the edge width and surrounding node size are positively correlated with the confidence of prediction, and in the evidence mode of network view, each E3-substrate interaction will be presented by multiple lines with different colors for different type of evidence. Clicking each edge will lead to a popup illustrating the supporting evidence, and clicking the surrounded node a popup for the sequence view of the involved substrate. In the sequence view for each E3-substrate interaction, the substrate’s sequence is shown in PRIDE format with multiple signs: black lines under the sequence denote the potential domain interacting with related E3, gray lines under the sequence mark the inferred E3 recognition consensus motif and the yellow background of character K means known ubiquitination site