3WMZ
Crystal Structure of Streptomyces coelicolor alpha-L-arabinofuranosidase ethylmercury derivative
Summary for 3WMZ
| Entry DOI | 10.2210/pdb3wmz/pdb |
| Related | 3WMY 3WN0 3WN1 3WN2 |
| Descriptor | Extracellular exo-alpha-L-arabinofuranosidase, CALCIUM ION, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ... (5 entities in total) |
| Functional Keywords | five-bladed beta-propeller, glycoside hydrolase, hydrolase |
| Biological source | Streptomyces coelicolor |
| Cellular location | Secreted : O54161 |
| Total number of polymer chains | 1 |
| Total formula weight | 47375.24 |
| Authors | Fujimoto, Z.,Maehara, T.,Ichinose, H.,Michikawa, M.,Harazono, K.,Kaneko, S. (deposition date: 2013-11-29, release date: 2014-02-05, Last modification date: 2017-11-22) |
| Primary citation | Maehara, T.,Fujimoto, Z.,Ichinose, H.,Michikawa, M.,Harazono, K.,Kaneko, S. Crystal structure and characterization of the glycoside hydrolase family 62 alpha-L-arabinofuranosidase from Streptomyces coelicolor J.Biol.Chem., 289:7962-7972, 2014 Cited by PubMed Abstract: α-L-arabinofuranosidase, which belongs to the glycoside hydrolase family 62 (GH62), hydrolyzes arabinoxylan but not arabinan or arabinogalactan. The crystal structures of several α-L-arabinofuranosidases have been determined, although the structures, catalytic mechanisms, and substrate specificities of GH62 enzymes remain unclear. To evaluate the substrate specificity of a GH62 enzyme, we determined the crystal structure of α-L-arabinofuranosidase, which comprises a carbohydrate-binding module family 13 domain at its N terminus and a catalytic domain at its C terminus, from Streptomyces coelicolor. The catalytic domain was a five-bladed β-propeller consisting of five radially oriented anti-parallel β-sheets. Sugar complex structures with l-arabinose, xylotriose, and xylohexaose revealed five subsites in the catalytic cleft and an l-arabinose-binding pocket at the bottom of the cleft. The entire structure of this GH62 family enzyme was very similar to that of glycoside hydrolase 43 family enzymes, and the catalytically important acidic residues found in family 43 enzymes were conserved in GH62. Mutagenesis studies revealed that Asp(202) and Glu(361) were catalytic residues, and Trp(270), Tyr(461), and Asn(462) were involved in the substrate-binding site for discriminating the substrate structures. In particular, hydrogen bonding between Asn(462) and xylose at the nonreducing end subsite +2 was important for the higher activity of substituted arabinofuranosyl residues than that for terminal arabinofuranoses. PubMed: 24482228DOI: 10.1074/jbc.M113.540542 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.9 Å) |
Structure validation
Download full validation report
