Figure 10

llustration of the binding sites, which correspond to different words. A: Illustration of the flexibility of calcium-binding sites in the Calcium-dependent protein kinase 3 (pdb code 3k21), which is cristallized with 3 calcium atoms (colored in blue). Among these 3 calcium-binding sites two are detected by overlapping words ZDOD and DODQ, colored in red. The third binding site is detected by overlapping words WDOD and DODQ, colored in magenta. B: Illustration of a GTP-binding site involving different 3D regions in the Translation initiation factor if2/eif5b (pdb code 1g7s). The GTP is represented in blue. The binding site is composed of three 3D regions (15-20, 130-133; 198-199). In red are colored the two regions, which are detected by superfamily-specific words: YUOD and UGBB over-represented in the superfamily "P-loop containing nucleoside triphosphate hydrolases" (52540). In magenta is colored the third region, which is not detected by superfamily-specific word. In Swiss-Prot this protein is annotated by two NP_bind annotations (12-19, 76-80, 130-133).