Multiple-docking and affinity fingerprint methods for protein classification and inhibitors selection.
Li B, Liu Z, Zhang L, Zhang L, J Chem Inf Model, 2009 Jul - link

Covalent complexes of proteasome model with peptide aldehyde inhibitors MG132 and MG101: docking and molecular dynamics study.
Zhang S, Shi Y, Jin H, Liu Z, Zhang L, Zhang L, J Mol Model, 2009 Dec - link

Structure-based prediction of transcription factor binding sites using a protein-DNA docking approach.
Liu Z, Guo JT, Li T, Xu Y, Proteins, 2008 Sep - link

Probing the catalytic center of porcine aminoacylase 1 by site-directed mutagenesis, homology modeling and substrate docking.
Liu Z, Zhen Z, Zuo Z, Wu Y, Liu A, Yi Q, Li W, J Biochem, 2006 Mar - link

PSI-DOCK: towards highly efficient and accurate flexible ligand docking.
Pei J, Wang Q, Liu Z, Li Q, Yang K, Lai L, Proteins, 2006 Mar 1 - link

Structural mining: self-consistent design on flexible protein-peptide docking and transferable binding affinity potential.
Liu Z, Dominy BN, Shakhnovich EI, J Am Chem Soc, 2004 Jul 14 - link