Carbohydrate Binding Module Family 105

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• Author: Guanchen Liu
• Responsible Curator: Yaoguang Chang

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CAZy DB link

https://www.cazy.org/CBM105.html

Ligand specificities

The first member of family CBM105 (SoCBM105) was identified in the PL29 multidomain chondroitinase SoChABC29 from Segatella oris [1]. SoCBM105 bound specifically to chondroitin sulfates (CSs) including CS-A and CS-C, while it was incapable of binding to other glycosaminoglycans or polyuronic acid substrates [1].

Structural Features

Figure 1. Domain analysis of SoChABC29, the parent enzyme of SoCBM105 [2]. The enzyme consists of a signal peptide (1-21 amino acids), a PL29 domain (66-380 amino acids) and a CBM105 domain (viz., SoCBM105; 555-785 amino acids).

An AlphaFold2 [2] model predicts that SoCBM105 has a β-sandwich fold (Fig.1).

Functionalities

SoCBM105 is at the C-terminus domain of a PL29 enzyme SoChABC29 that displays chondroitin sulfate ABC activity, consistent with the SoCBM105 specificity [1]. Biochemical characterization of SoChABC29 and the CBM-truncated enzyme revealed that the SoCBM105 enhances the catalytic activity, thermostability, and disaccharide proportion in the final enzymatic products of SoChABC29 [1].

Family Firsts

First Identified

Binding to chondroitin sulfate in the CBM105 family was first characterized and identified for SoCBM105 from the S. oris PL29 chondroitinase [1].

First Structural Characterization

No experimentally determined three-dimensional structure has been solved in this CBM family.

References

1. Liu G, Song L, Li J, Song X, Mei X, Zhang Y, Fan C, Chang Y, and Xue C. (2024). Identification and characterization of a chondroitinase ABC with a novel carbohydrate-binding module. Int J Biol Macromol. 2024;271(Pt 1):132518. DOI:10.1016/j.ijbiomac.2024.132518 |
2. Jumper J, Evans R, Pritzel A, Green T, Figurnov M, Ronneberger O, Tunyasuvunakool K, Bates R, Žídek A, Potapenko A, Bridgland A, Meyer C, Kohl SAA, Ballard AJ, Cowie A, Romera-Paredes B, Nikolov S, Jain R, Adler J, Back T, Petersen S, Reiman D, Clancy E, Zielinski M, Steinegger M, Pacholska M, Berghammer T, Bodenstein S, Silver D, Vinyals O, Senior AW, Kavukcuoglu K, Kohli P, and Hassabis D. (2021). Highly accurate protein structure prediction with AlphaFold. Nature. 2021;596(7873):583-589. DOI:10.1038/s41586-021-03819-2 |