6imv | pdb_00006imv

The complex structure of endo-beta-1,2-glucanase from Talaromyces funiculosus with sophorose

spinqualitylabelsall models 6imv, resolution 2.00Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6imv is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: BGC, GLC, NAG, PEG Related: 6imu Activity: Glucan endo-1,2-beta-glucosidase, with EC number 3.2.1.71 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed endo-beta-1,2-Glucanase (SGL) is an enzyme that hydrolyzes beta-1,2-glucans, which play important physiological roles in some bacteria as a cyclic form. To date, no eukaryotic SGL has been identified. We purified an SGL from Talaromyces funiculosus (TfSGL), a soil fungus, to homogeneity and then cloned the complementary DNA encoding the enzyme. TfSGL shows no significant sequence similarity to any known glycoside hydrolase (GH) families, but significant homology to certain eukaryotic proteins with unknown functions. The recombinant TfSGL (TfSGLr) specifically hydrolyzed linear and cyclic beta-1,2-glucans to sophorose (Glc-beta-1,2-Glc) as a main product. TfSGLr hydrolyzed reducing-end-modified beta-1,2-glucooligosaccharides to release a sophoroside with the modified moiety. These results indicate that TfSGL is an endo-type enzyme that preferably releases sophorose from the reducing end of substrates. Stereochemical analysis demonstrated that TfSGL is an inverting enzyme. The overall structure of TfSGLr includes an (alpha/alpha)6 toroid fold. The substrate binding mode was revealed by the structure of a Michaelis complex of an inactive TfSGLr-mutant with a beta-1,2-glucoheptasaccharide. Mutational analysis and action pattern analysis of beta-1,2-glucooligosaccharide derivatives revealed an unprecedented catalytic mechanism for substrate hydrolysis. Glu-262 (general acid) indirectly protonates the anomeric oxygen at subsite -1 via the 3-hydroxy group of the Glc moiety at subsite +2, and Asp-446 (general base) activates the nucleophilic water via another water. TfSGLr is apparently different from a GH144 SGL in the reaction and substrate recognition mechanism based on structural comparison. Overall, we propose that TfSGL and closely related GH enzymes can be classified into a new family, GHxyz. Identification, characterization and structural analyses of a fungal endo-beta-1,2-glucanase reveal a new glycoside hydrolase family.,Tanaka N, Nakajima M, Narukawa-Nara M, Matsunaga H, Kamisuki S, Aramasa H, Takahashi Y, Sugimoto N, Abe K, Terada T, Miyanaga A, Yamashita T, Sugawara F, Kamakura T, Komba S, Nakai H, Taguchi H J Biol Chem. 2019 Mar 29. pii: RA118.007087. doi: 10.1074/jbc.RA118.007087. PMID:30926603 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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