3AS0
Crystal Structure Analysis of Chitinase A from Vibrio harveyi with novel inhibitors - W275G mutant complex structure with Sanguinarine
Summary for 3AS0
Entry DOI | 10.2210/pdb3as0/pdb |
Related | 3ARO 3ARP 3ARQ 3ARR 3ARS 3ART 3ARU 3ARV 3ARW 3ARX 3ARY 3ARZ 3AS1 3AS2 3AS3 |
Descriptor | Chitinase A, 13-methyl[1,3]benzodioxolo[5,6-c][1,3]dioxolo[4,5-i]phenanthridin-13-ium, GLYCEROL, ... (4 entities in total) |
Functional Keywords | tim barrel, inhibitor complex, glycosidase, hydrolase, hydrolase-hydrolase inhibitor complex, hydrolase/hydrolase inhibitor |
Biological source | Vibrio harveyi |
Total number of polymer chains | 1 |
Total formula weight | 64469.37 |
Authors | Pantoom, S.,Vetter, I.R.,Prinz, H.,Suginta, W. (deposition date: 2010-12-09, release date: 2011-04-20, Last modification date: 2024-10-23) |
Primary citation | Pantoom, S.,Vetter, I.R.,Prinz, H.,Suginta, W. Potent family-18 chitinase inhibitors: x-ray structures, affinities, and binding mechanisms J.Biol.Chem., 286:24312-24323, 2011 Cited by PubMed Abstract: Six novel inhibitors of Vibrio harveyi chitinase A (VhChiA), a family-18 chitinase homolog, were identified by in vitro screening of a library of pharmacologically active compounds. Unlike the previously identified inhibitors that mimicked the reaction intermediates, crystallographic evidence from 14 VhChiA-inhibitor complexes showed that all of the inhibitor molecules occupied the outer part of the substrate-binding cleft at two hydrophobic areas. The interactions at the aglycone location are well defined and tightly associated with Trp-397 and Trp-275, whereas the interactions at the glycone location are patchy, indicating lower affinity and a loose interaction with two consensus residues, Trp-168 and Val-205. When Trp-275 was substituted with glycine (W275G), the binding affinity toward all of the inhibitors dramatically decreased, and in most structures two inhibitor molecules were found to stack against Trp-397 at the aglycone site. Such results indicate that hydrophobic interactions are important for binding of the newly identified inhibitors by the chitinase. X-ray data and isothermal microcalorimetry showed that the inhibitors occupied the active site of VhChiA in three different binding modes, including single-site binding, independent two-site binding, and sequential two-site binding. The inhibitory effect of dequalinium in the low nanomolar range makes this compound an extremely attractive lead compound for plausible development of therapeutics against human diseases involving chitinase-mediated pathologies. PubMed: 21531720DOI: 10.1074/jbc.M110.183376 PDB entries with the same primary citation |
Experimental method | X-RAY DIFFRACTION (2 Å) |
Structure validation
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