Figure 4

Triangle network motifs and themes from Gavin06MATRIX. Red lines are SDDIs and black lines are PPIs; the SDDIs did not overlap with PPIs from Gavin06MATRIX. The blue boxes show the high number of interaction partners for various proteins in Gavin06MATRIX, supporting that integration with SDDIs can help to find protein complexes. The light gray lines show additional protein connections in the dataset, which resulted in triangles. Each subfigure shows a subnetwork of the original dataset with a specific story. The subfigures represent: a. Myosin-actin interactions, mostly SDDIs, which occur in various processes and locations. The blue structure shown is the Sec7 domain (SCOP code a.118.3.1), which was assigned to GEA1. The red structure is the G protein domain (SCOP code c.37.1.8), which was assigned to RSR1 and ARF2. The PDB file that displays these domains as interacting, and from which the image was generated, has the code 1RE0. b. These SDDIs are extended with additional PPIs from Gavin06MATRIX, showing specific myosin-actin involvement in cytoskeleton organisation, c. nucleus transcription, and d. mRNA translocation.