Figure 11

Result Graph PF00002. The reduced result graph for 7tm_2 (PF00002) transmembrane receptor rhodopsin family generated from TMHMM transmembrane-helical information. After removing less weighted edge connections, the graph is given more clearly. Different nodes are given as representative motifs. Two possible node colours describe the predicted topology state (TM = transmembrane, nTM = none- transmembrane) based on previous work by Grunert and colleagues [14] for each motif closer. This distinguishes TM-typical from TM-non-typical graph present motifs. Coloured weighted edges can be assigned to a occurrence of the graph pendant colour-scale. Ultimately, the graph makes clear how often different consecutive motifs occur. Highly occurring motifs are connected with red coloured edges. Here, NQ3-GI3 are the most common consecutive motifs. This occurrence is specific for this family and can be responsible for possible functional or structural protein features. Networking with existing biological databases like PROSITE [21–24] delivers important information about protein domains, families and functional sites as well as associated patterns and profiles to identify them. In relation to NQ3-GI3, these motifs are involved in the consensus pattern of retinal binding sites. Retinal binding site matching PDB structures are e.g. 1ET2, 1ET3.