8q8h

Crystal Structure of Apo beta-D-GalNAcase from Niabella aurantiaca (Structure 2)

spinqualitylabelsall models 8q8h, resolution 2.50Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 8q8h is a 4 chain structure with sequence from Niabella aurantiaca DSM 17617. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.5Å Ligands: NA, SO4 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed We report here the identification, characterization and three-dimensional (3D) structure determination of NaNga, a newly identified beta-N-acetylgalactosaminidase from the Gram-negative soil bacterium Niabella aurantiaca DSM 17617. When recombinantly expressed in Escherichia coli, the enzyme selectively cleaved 4-nitrophenyl-N-acetyl-beta-d-galactosamine (pNP-beta-d-GalpNAc). The X-ray crystal structure of the protein was refined to 2.5 A and consists of an N-terminal beta-sandwich domain and a (beta/alpha)(8) barrel catalytic domain. Despite a mere 22% sequence identity, the 3D structure of NaNga is similar to those previously determined for family GH123 members, suggesting it also employs the same substrate-assisted catalytic mechanism. Inhibition by N-acetyl-galactosamine thiazoline (GalNAc-thiazoline) supports the suggested mechanism. A phylogenetic analysis of its proximal sequence space shows significant clustering of unknown sequences around NaNga with sufficient divergence with previously identified GH123 members to subdivide this family into distinct subfamilies. Although the actual biological substrate of our enzyme remains unknown, examination of the active site pocket suggests that it may be a beta-N-acetylgalactosaminide substituted by a monosaccharide at O-3. Analysis of the genomic context suggests, in turn, that this substituted beta-N-acetylgalactosaminide may be appended to a d-arabinan from an environmental Actinomycete. Characterization and structural study of a novel beta-N-acetylgalactosaminidase from Niabella aurantiaca.,Moreno Prieto ES, Fjermedal S, Siebenhaar S, Vuillemin M, Holck J, Vincentelli R, Gippert GP, Wilkens C, Morth JP, Henrissat B FEBS J. 2024 Apr;291(7):1439-1456. doi: 10.1111/febs.17042. Epub 2024 Jan 4. PMID:38129294 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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