Fig. 6.

Sequence conservation in related proteins with complex knotting fingerprints. (A) Ubiquitin C-terminal hydrolase (knot notation K5₂3₁3₁). (B) Five families of proteins with knotting notation S3₁4₁3₁ (see Table 1). The positions of the protein regions where varying the length of the analyzed subchain leads to a passage from a knot to the unknot and then again to a knot are indicated with dashed lines. These regions show strong sequence conservation with a high proportion of conserved glycines. The placement of these glycines can be seen in the molecular structures of representative proteins belonging to the analyzed groups (Yuh1 and LeuT for A and B, respectively) and also on the schematic drawings.