Docking of protein molecular surfaces with evolutionary trace analysis.
Kanamori E, Murakami Y, Tsuchiya Y, Standley DM, Nakamura H, Kinoshita K, Proteins, 2007 Dec 1 - link

Flexible docking of an amyloid-forming peptide from beta(2)-microglobulin.
Standley DM, Yonezawa Y, Goto Y, Nakamura H, FEBS Lett, 2006 Nov 13 - link