A subfamily classification to choreograph the diverse activities within Glycoside Hydrolase family 31 (GH31)
- Author(s)
- Arumapperuma, T; Li, J; Hornung, B; Madiedo Soler, N; Goddard-Borger, ED; Terrapon, N; Williams, SJ;
- Details
- Publication Year 2023-02-16,Volume 299,Issue #4,Page 103038
- Journal Title
- Journal of Biological Chemistry
- Abstract
- The Carbohydrate-Active Enzyme classification groups enzymes that breakdown, assemble or decorate glycans into protein families based on sequence similarity. The glycoside hydrolases (GH) are arranged into over 170 enzyme families, with some being very large and exhibiting distinct activities/specificities towards diverse substrates. Family GH31 is a large family that contains more than 20,000 sequences with a wide taxonomic diversity. Less than 1% of GH31 members are biochemically characterized and exhibit 16 different activities that include glycosidases, lyases and transglycosidases. This diversity of activities limits our ability to predict the activities and roles of GH31 family members in their host organism, and our ability to exploit these enzymes for practical purposes. Here, we established a subfamily classification using sequence similarity networks (SSNs) that was further validated by a structural analysis. Whilst SSNs provide a sequence-based separation, we obtained good segregation between activities among the subfamilies. Our subclassification consists of 20 subfamilies with sixteen subfamilies containing at least one characterized member and eleven subfamilies that are monofunctional based on the available data. We also report the biochemical characterization of a member of the large subfamily 2 (GH31_2) that lacked any characterized members: RaGH31 from Rhodoferax aquaticus is an α-glucosidase with activity on a range of disaccharides including sucrose, trehalose, maltose and nigerose. Our subclassification provides improved predictive power for the vast majority of uncharacterized proteins in family GH31 and highlights the remaining sequence space that remains to be functionally explored.
- Publisher
- Elsevier
- Keywords
- bioinformatics; enzyme; glycobiology; glycosidase; kinetics
- Research Division(s)
- Chemical Biology
- PubMed ID
- 36806678
- Publisher's Version
- https://doi.org/10.1016/j.jbc.2023.103038
- Open Access at Publisher's Site
https://doi.org/10.1016/j.jbc.2023.103038- Terms of Use/Rights Notice
- Refer to copyright notice on published article.
Creation Date: 2023-03-08 03:15:50
Last Modified: 2023-04-12 10:15:47