Figure 3

Structures of docked SAHA with Homo sapiens Class II HDACs. Three Conformations of Structures of docked SAHA with (A) HDAC4, (B) HDAC5, (C) HDAC6, (D) HDAC7, (E) HDAC9 and (F) HDAC10. A surface representation of catalytic domain of Homo sapiens Class II HDACs bound to SAHA. The zinc ion is shown as gray sphere. SAHA are shown as stick models colored as per docked type: red, blue, and yellow. Amino acids coordinating the zinc and forming the trihedrally coordinates are shown as sticks. Some catalytic domain of Homo sapiens Class II HDACs residues interacting with the docked SAHA are shown as stick models. In HDAC4-SAHA, HDAC5-SAHA, HDAC6-SAHA and HDAC7-SAHA complexes, SAHA binds the catalytic zinc ion in a bidentate fashion, with its carbonyl and hydroxyl bound to catalytic zinc ion. Whereas, in HDAC9-SAHA and HDAC10-SAHA complexes bind the catalytic zinc ion in a monodentate fashion, with its carbonyl bound to catalytic zinc ion.