Figure 4

Examples of two identified structural motifs. (a) A three-residue structural motif used to bind a sugar in a D-allose binding protein (PDB code: 1rpj in light blue) and in a Glycolipd Transfer Protein (PDB code: 1sx6 in salmon). Only part of the protein chains is displayed. Residues Asn 52 and Asp 48 (in red) of 1sx6, similarly to the matching residues Gln 247 and Asp 227 (in blue) of 1rpj, are hydrogen bonded to the hydroxyl groups of the sugar ligands (in red and blue). (b) A three-residue nucleotide binding motif found in four proteins: a methyltransferase from Dengue virus (1l9k in blue: val130, asp131 and val132), saccharopine reductase from Magnaporthe grisea (1e5q in red: leu54, asp55 and val56), riboflavin kinase from Schizosaccharomyces pombe (1n07 in green: val97, his98 and leu99) and a Group II Chaperonin from Thermococcus (1q3s in yellow: ile479, asp480 and val481). In the corners of the figure each structure is represented alone in grey with the residues comprising the structural motif and the ligand in colour. In the centre all the four structures are shown superimposed on their structural motif. The residues in the motif are coloured while the four ligands are in grey.