Figure 1
From: EVEREST: automatic identification and classification of protein domains in all protein sequences
Multi domain proteins and the trap of false transitivity. Three bacterial proteins are shown. Boxes represent domains, colored by their Pfam classification. Red = C terminal transcriptional regulatory domain; Green = Response regulator receiver domain; Yellow = luxR family, Blue = Autoinducer binding domain; Thin lines mark similarity of domains. The protein [Swiss-Prot:P54662] is similar to each of the two other proteins via a different domain, therefore careless use of transitivity might lead to the false conclusion that [Swiss-Prot:O31395] is similar to [Swiss-Prot:O30919].