7xtm | pdb_00007xtm

Crystal structure of the C-terminal domain of Bombyx mori N-acetylglucosaminyltransferase IV

spinqualitylabelsall models 7xtm, resolution 1.47Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 7xtm is a 2 chain structure with sequence from Bombyx mandarina. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: EDO, MES Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function [A0A6J2JXS5_BOMMA] Publication Abstract from PubMed N-glycans are modified by glycosyltransferases in the endoplasmic reticulum and Golgi apparatus. N-acetylglucosaminyltransferase IV (GnT-IV) is a Golgi-localized glycosyltransferase that synthesizes complex-type N-glycans in vertebrates. This enzyme attaches N-acetylglucosamine (GlcNAc) to the alpha-1,3-linked mannose branch of the N-glycan core structure via a beta-1,4 linkage. Deficiency of this enzyme is known to cause abnormal cellular functions, making it a vital enzyme for living organisms. However, there has been no report on its three-dimensional structure to date. Here, we demonstrated that the C-terminal regions (named CBML) of human GnT-IVa and Bombyx mori ortholog have the ability to bind beta-N-acetylglucosamine. Additionally, we determined the crystal structures of human CBML, B. mori CBML, and its complex with beta-GlcNAc at 1.97, 1.47, and 1.15 A resolutions, respectively, and showed that they adopt a beta-sandwich fold, similar to carbohydrate-binding module family 32 (CBM32) proteins. The regions homologous to CBML (>/=24 percent identity) were found in GnT-IV isozymes, GnT-IVb, and GnT-IVc (known as GnT-VI), and the structure of B. mori CBML in complex with beta-GlcNAc indicated that the GlcNAc-binding residues were highly conserved among these isozymes. These residues are also conserved with the GlcNAc-binding CBM32 domain of beta-N-acetylhexosaminidase NagH from Clostridium perfringens despite the low sequence identity (<20 percent). Taken together with the phylogenetic analysis, these findings indicate that these CBMLs may be novel CBM family proteins with GlcNAc-binding ability. Crystal structure and sugar-binding ability of the C-terminal domain of N-acetylglucosaminyltransferase IV establish a new carbohydrate-binding module family.,Oka N, Mori S, Ikegaya M, Park EY, Miyazaki T Glycobiology. 2022 Sep 15. pii: 6700080. doi: 10.1093/glycob/cwac058. PMID:36106687 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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