Figure 7

Example of non-sequential alignment without a dominant sequential part. Structures of the alpha subunit of 2-oxoisovalerate dehydrogenase (PDB-code 1v16:A) and molybdenum cofactor biosynthetic enzyme (PDB-code 1di6:A) have been aligned by TOPOFIT with N _e /RMSD of 95/1.6 Å. Both proteins have α/β structure but belong to different folds: the THDP-fold and to the fold of molybdenum cofactor biosynthetic enzymes respectively. The longest sequential alignment (composed of blue and red segments) has 25 residues. a) displays superposition of the aligned regions. b) and c) display the topologies of the secondary structure elements in the proteins. d) displays the corresponding alignment plot. e) displays a schematic linear diagram of segment permutation in the alignment.