Figure 1.

Successful prediction of the laminin–nidogen complex (target T08). In T08, a fragment of laminin (entry 1KLO) was docked on the “bound” nidogen domain G3. Nidogen is drawn as a blue surface, laminin as a ribbon: green in the X-ray structure (Takagi et al. 2003), red in this “good-quality” docking model. Predicted epitope positions are within 1.1 Å of their correct position, and 47% of the residue–residue contacts are reproduced, even though the elongated laminin fragment is tilted relative to the X-ray structure and no attempt was made to reproduce the conformation change seen at the bottom end of the fragment. (Courtesy of Dr. Z. Weng, Boston University, Boston, MA.)