Abstract
Cellvibrio japonicus arabinanase Arb43A hydrolyzes the α-1,5-linked L-arabinofuranoside backbone of plant cell wall arabinans. The three-dimensional structure of Arb43A, determined at 1.9 Å resolution, reveals a five-bladed β-propeller fold. Arb43A is the first enzyme known to display this topology. A long V-shaped surface groove, partially enclosed at one end, forms a single extended substrate-binding surface across the face of the propeller. Three carboxylates deep in the active site groove provide the general acid and base components for glycosidic bond hydrolysis with inversion of anomeric configuration.
Similar content being viewed by others
References
Bacic, A., Harris, P.J. & Stone, B.A. in The Biochemistry of Plants Vol. 14 (ed. Preiss, J.) 297–371 (Academic Press, San Diego; 1988).
Matsuo, N., Kaneko, S., Kuno, A., Kobayashi, H. & Kusakabe, I. Biochem. J. 346, 9–15 (2000).
McKie, V.A. et al. Biochem. J. 323, 547–555 (1997).
Coutinho, P.M. & Henrissat, B. in Recent Advances in Carbohydrate Engineering (eds Gilbert, H.J., Davies, G.J., Svensson, B. & Henrissat, B.) 3–12 (Royal Society of Chemistry, Cambridge, UK; 1999).
Nagy, T., Emami, K., Fontes, C.M.G.A., Ferreira, L.M.A. & Gilbert, H.J. J. Bacteriol. 184, 4925–4929 (2002).
Fülöp, V. & Jones, D.T. Curr. Opin. Struct. Biol. 9, 715–721 (1999).
Baker, S.C. et al. J. Mol. Biol. 269, 440–455 (1997).
Neer, E.J. & Smith, T.F. Cell 84, 175–178 (1996).
Beisel, H.G., Kawabata, S., Iwanaga, S., Huber, R. & Bode, W. EMBO J. 18, 2313–2322 (1999).
Jawad, Z. & Paoli, M. Structure 10, 447–454 (2002).
Fülöp, V., Bocskei, Z. & Polgar, L. Cell 94, 161–170 (1998).
Paoli, M. Nature Struct. Biol. 8, 744 (2001).
Pitson, S.M., Voragen, A.G. & Beldman, G. FEBS Lett. 398, 7–11 (1996).
Davies, G., Sinnott, M.L. & Withers, S.G. in Comprehensive Biological Catalysis Vol. 1 (ed. Sinnott, M.L.) 119–209 (Academic Press, London; 1997).
Nurizzo, D., Nagy, T., Gilbert, H.J. & Davies, G.J. Structure 10, 547–556 (2002).
Davies, G. & Henrissat, B. Structure 3, 853–859 (1995).
Pages, S., Kester, H.C., Visser, J. & Benen, J.A. J. Biol. Chem. 276, 33652–33656 (2001).
Paoli, M. Prog. Biophys. Mol. Biol, 76, 103–130 (2001).
Charnock, S.J. et al. Biochemistry 39, 5013–5021 (2000).
Otwinowski, Z. & Minor Methods Enzymol. 276 307–326 (1997).
Terwilliger, T.C. & Berendzen, J. Acta Crystallogr. D 55, 849–861 (1999).
de La Fortelle, E. & Bricogne, G. Methods Enzymol. 276, 472–494 (1997).
Navaza, J. & Saludijan, P. Methods Enzymol. 276, 581–594 (1997).
Cowtan, K.D. & Main, P. Acta Crystallogr.D 49, 148–157 (1996).
Murshudov, G.N., Vagin, A.A. & Dodson, E.J. Acta Crystallogr D 53, 240–255 (1997).
Esnouf, R.M. J. Mol. Graph. 15, 133–138 (1997).
Sharp, K., Fine, R. & Honig, B. Science 236, 1460–1463 (1987).
Read, R.J. Acta Crystallogr. A 42, 140–149 (1986).
Kleywegt, G.J. & Jones, T.A. Structure 4, 1395–1400 (1996).
Acknowledgements
We thank the BBSRC and the Wellcome Trust for funding and the staff of the Daresbury and European Synchrotron Radiation Sources for provision of beamtime. D.N. thanks EMBO for provision of a long-term fellowship and G.J.D is a Royal Society University Research Fellow.
Author information
Authors and Affiliations
Corresponding author
Ethics declarations
Competing interests
The authors declare no competing financial interests.
Rights and permissions
About this article
Cite this article
Nurizzo, D., Turkenburg, J., Charnock, S. et al. Cellvibrio japonicus α-L-arabinanase 43A has a novel five-blade β-propeller fold. Nat Struct Mol Biol 9, 665–668 (2002). https://doi.org/10.1038/nsb835
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1038/nsb835
- Springer Nature America, Inc.
This article is cited by
-
Two distinct catalytic pathways for GH43 xylanolytic enzymes unveiled by X-ray and QM/MM simulations
Nature Communications (2021)
-
Molecular Cloning and Characterization of a Novel Cold-Adapted Alkaline 1,3-α-3,6-Anhydro-l-galactosidase, Ahg558, from Gayadomonas joobiniege G7
Applied Biochemistry and Biotechnology (2019)
-
Delineating thermophilic xylanase from Bacillus licheniformis DM5 towards its potential application in xylooligosaccharides production
World Journal of Microbiology and Biotechnology (2019)
-
Structure of the Catalytic Domain of α-l-Arabinofuranosidase from Coprinopsis cinerea, CcAbf62A, Provides Insights into Structure–Function Relationships in Glycoside Hydrolase Family 62
Applied Biochemistry and Biotechnology (2017)
-
Prebiotic Oligosaccharides: Special Focus on Fructooligosaccharides, Its Biosynthesis and Bioactivity
Applied Biochemistry and Biotechnology (2017)