Characterization of an exo-β-1,3-galactanase from Clostridium thermocellum

Applied and Environmental Microbiology

Volumn 72, Issue 5, 2006, Pages 3515-3523

  Ichinose, Hitomi ^a   Kuno, Atsushi ^b   Kotake, Toshihisa ^c   Yoshida, Makoto ^a   Sakka, Kazuo ^d   Hirabayashi, Jun ^b   Tsumuraya, Yoichi ^c   Kaneko, Satoshi ^a  

^a NATIONAL FOOD RESEARCH INSTITUTE   (Japan)

^b NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^c SAITAMA UNIVERSITY   (Japan)

^d MIE UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; CATALYSIS; ELECTROPHORESIS; ESCHERICHIA COLI; GENETIC ENGINEERING; HYDROLYSIS; PH EFFECTS; POLYSACCHARIDES;

CLOSTRIDIUM THERMOCELLUM; FRONTAL AFFINITY CHROMATOGRAPHY; GALACTOSYL SIDE CHAIN; GENE ENCODING;

ENZYMES;

ALPHA ARABINOFURANOSIDASE; ARABINOGALACTAN; BACTERIAL ENZYME; BETA 1,3 GALACTANASE; BETA 1,3 GALACTOBIOSE; BETA 1,4 GALACTOSYL N ACETYLGLUCOSAMINIDE; BETA 1,4 GALACTOSYLGLUCOSE; GALACTAN; GALACTOSE; GENE PRODUCT; GLYCOSIDASE; OLIGOSACCHARIDE; POLYSACCHARIDE; UNCLASSIFIED DRUG;

ENZYME ACTIVITY; FECAL COLIFORM; GENE; PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CLOSTRIDIUM THERMOCELLUM; CONTROLLED STUDY; DNA SEQUENCE; ENZYME SPECIFICITY; ESCHERICHIA COLI; GEL ELECTROPHORESIS; GENE ISOLATION; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; HYDROLYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHANEROCHAETE;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; CARBOHYDRATE SEQUENCE; CLOSTRIDIUM THERMOCELLUM; GALACTOSE; GLYCOSIDE HYDROLASES; MOLECULAR SEQUENCE DATA; OLIGOSACCHARIDES; POLYSACCHARIDES; RECOMBINANT PROTEINS; SUBSTRATE SPECIFICITY;

CLOSTRIDIUM THERMOCELLUM; ESCHERICHIA COLI; PHANEROCHAETE CHRYSOSPORIUM;

EID: 33646583475     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.72.5.3515-3523.2006     Document Type: Article

References (46)

1. Bayer, E. A., J. P. Belaich, Y. Shoham, and R. Lamed. 2004. The cellulosomes: multienzyme machines for degradation of plant cell wall polysaccharides. Annu. Rev. Microbiol. 58:521-554.
2. Boraston, A. B., P. Tomme, E. A. Amandoron, and D. G. Kilburn. 2000. A novel mechanism of xylan binding by a lectin-like module from Streptomyces lividans xylanase 10A. Biochem. J. 350:933-941.
3. Borner, G. H., D. J. Sherrier, T. J. Stevens, I. T. Arkin, and P. Dupree. 2002. Prediction of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A genomic analysis. Plant Physiol. 129:486-499.
4. Carvalho, A. L., F. M. Dias, J. A. Prates, T. Nagy, H. J. Gilbert, G. J. Davies, L. M. Ferreira, M. J. Romão, and C. M. Fontes. 2003. Cellulosome assembly revealed by the crystal structure of the cohesin-dockerin complex. Proc. Natl. Acad. Sci. USA 100:13809-13814.
5. Chen, C. G., Z. Y. Pu, R. L. Moritz, R. J. Simpson, A. Bacic, A. E. Clarke, and S. L. Mau. 1994. Molecular cloning of a gene encoding an arabinogalactan-protein from pear (Pyrus communis) cell suspension culture. Proc. Natl. Acad. Sci. USA 91:10305-10309.
6. Cheung, A. Y., H. Wang, and H. M. Wu. 1995. A floral transmitting tissue-specific glycoprotein attracts pollen tubes and stimulates their growth. Cell 82:383-393.
7. Clarke, A. E., R. L. Anderson, and B. A. Stone. 1979. Form and function of arabinogalactans and arabinogalactan-proteins. Phytochemistry 18:521-540.
8. Davies, G., and B. Henrissat. 1995. Structures and mechanisms of glycoside hydrolases. Structure 3:853-859.
9. Du, H., R. J. Simpson, R. L. Moritz, A. E. Clarke, and A. Bacic. 1994. Isolation of the protein backbone of an arabinogalactan-protein from the styles of Nicotiana alata and characterization of a corresponding cDNA. Plant Cell 6:1643-1653.
10. Felix, C. R., and L. G. Ljungdahl. 1993. The cellulosome: the exocellular organelle of Clostridium. Annu. Rev. Microbiol. 47:791-819.
11. Fincher, G. B., W. H. Sawyer, and B. A. Stone. 1974. Chemical and physical properties of an arabinogalactan-peptide from wheat endosperm. Biochem. J. 139:535-545.
12. Fujimoto, Z., A. Kuno, S. Kaneko, H. Kobayashi, I. Kusakabe, and H. Mizuno. 2002. Crystal structures of the sugar complexes of Streptomyces olivaseoviridis E-86 xylanase: sugar binding structure of the family 13 carbohydrate binding module. J. Mol. Biol. 316:65-78.
13. Gaspar, Y., K. L. Johnson, J. A. McKenna, A. Bacic, and C. J. Schultz. 2001. The complex structures of arabinogalactan-proteins and the journey towards understanding function. Plant Mol. Biol. 47:161-176.
14. Henrissat, B. 1991. A classification of glycosyl hydrolases based on amino acid sequence similarities. Biochem. J. 280:309-316.
15. Hirabayashi, J., S. K. Dutta, and K. Kasai. 1998. Novel galactose-binding proteins in Annelida. Characterization of 29-kDa tandem repeat-type lectins from the earthworm Lumbricus terrestris. J. Biol. Chem. 273:14450-14460.
16. Hirabayashi, J., T. Hashidate, Y. Arata, N. Nishi, T. Nakamura, M. Hirashima, T. Urashima, T. Oka, M. Futai, W. E. Muller, F. Yagi, and K. Kasai. 2002. Oligosaccharide specificity of galectins: a search by frontal affinity chromatography. Biochim. Biophys. Acta 1572:232-254.
17. Hirabayashi, J., Y. Arata, and K. Kasai. 2003. Frontal affinity chromatography as a tool for elucidation of sugar recognition properties of lectins. Methods Enzymol. 362:353-368.
18. Ichinose, H., M. Yoshida, T. Kolake, A. Kuno, K. Igarashi, Y. Tsumuraya, M. Samejima, J. Hirabayashi, H. Kobayashi, and S. Kaneko. 2005. An exo-β-1,3-galactanase having a novel β-1,3-galactan binding module from Phanerochaete chrysosporium. J. Biol. Chem. 280:25820-25829.
19. Ito, S., A. Kuno, R. Suzuki, S. Kaneko, Y. Kawabata, I. Kusakabe, and T. Hasegawa. 2004. Rational affinity purification of native Streptomyces family 10 xylanase. J. Biotechnol. 110:137-142.
20. Juy, M., A. G. Amit, P. M. Alzari, R. J. Poljak, M. Claeyssens, P. Béguin, and J. P. Aubert. 1992. Three-dimensional structure of a thermostable bacterial cellulase. Nature 357:89-91.
21. Knox, J. P. 1995. The extracellular matrix in higher plants. 4. Developmentally regulated proteoglycans and glycoproteins of the plant cell surface. FASEB J. 9:1004-1012.
22. Kotake, T., S. Kaneko, A. Kubomoto, M. A. Haque, H. Kobayashi, and Y. Tsumuraya. 2004. Molecular cloning and expression in Escherichia coli of a Trichoderma viride endo-β-(1→6)-galactanase gene. Biochem. J. 377:749-755.
23. Kreuger, M., and G. J. van Holst. 1996. Arabinogalactan proteins and plant differentiation. Plant Mol. Biol. 30:1077-1086.
24. Kuno, A., S. Kaneko, H. Ohtsuki, S. Ito, Z. Fujimoto, H. Mizuno, T. Hasegawa, K. Taira, I. Kusakabe, and K. Hayashi. 2000. Novel sugar-binding specificity of the type XIII xylan-binding domain of a family F/10 xylanase from Streptomyces olivaceoviridis E-86. FEBS Lett. 482:231-236.
25. Laemmli, U. K. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature (London) 227:680-685.
26. Lytle, B. L., B. F. Volkman, W. M. Westler, M. P. Heckman, and J. H. Wu. 2001. Solution structure of a type I dockerin domain, a novel prokaryotic, extracellular calcium-binding domain. J. Mol. Biol. 307:745-753.
27. Majewska-Sawka, A., and E. A. Nothnagel. 2000. The multiple roles of arabinogalactan proteins in plant development. Plant Physiol. 122:3-10.
28. Matsui, I., K. Ishikawa, E. Matsui, S. Miyairi, S. Fukui, and K. Honda. 1991. Subsite structure of Saccharomycopsis alpha-amylase secreted from Saccharomyces cerevisiae. J. Biochem. (Tokyo) 109:566-569.
29. Mau, S. L., C. G. Chen, Z. Y. Pu, R. L. Moritz, R. J. Simpson, A. Bacic, and A. E. Clarke. 1995. Molecular cloning of cDNAs encoding the protein backbones of arabinogalactan-proteins from the filtrate of suspension-cultured cells of Pyrus communis and Nicotiana alata. Plant J. 8:269-281.
30. Montfort, W., J. E. Villafranca, A. F. Monzingo, S. R. Ernst, B. Katzin, E. Rutenber, N. H. Xoung, R. Hamlin, and J. D. Robertus. 1987. The three-dimensional structure of ricin at 2.8 Å. J. Biol. Chem. 262:5398-5403.
31. Nakamura, S., F. Yagi, K. Totani, Y. Ito, and J. Hirabayashi. 2005. Comparative analysis of carbohydrate-binding properties of two tandem repeat-type Jacalin-related lectins, Castanea crenata agglutinin and Cycas revoluta leaf lectin. FEBS J. 272:2784-2799.
32. Pellerin, P., and J. M. Brillouet. 1994. Purification and properties of an exo-(1→3)-β-D-galactanase from Aspergillus niger. Carbohydr. Res. 264:281-291.
33. Roy, S., G. Y. Jauh, P. K. Hepler, and E. M. Lord. 1998. Effects of Yariv phenylglycoside on cell wall assembly in the lily pollen tube. Planta 204:450-458.
34. Schindelman, G., A. Morikami, J. Jung, T. I. Baskin, N. C. Carpita, P. Derbyshire, M. C. McCann, and P. N. Benfey. 2001. COBRA encodes a putative GPI-anchored protein, which is polarly localized and necessary for oriented cell expansion in Arabidopsis. Genes Dev. 15:1115-1127.
35. Schultz, C. J., K. L. Johnson, G. Currie, and A. Bacic. 2000. The classical arabinogalactan protein gene family of Arabidopsis. Plant Cell 12:1751-1768.
36. Sommer-Knudsen, J., A. Bacic, and A. E. Clarke. 1998. Hydroxylproline-rich plant glycoproteins. Phytochemistry 47:483-497.
37. Somogyi, M. 1952. Notes on sugar determination. J. Biol. Chem. 195:19-23.
38. Sun, W., Z. D. Zhao, M. C. Hare, M. J. Kieliszewski, and A. M. Showalter. 2004. Tomato LeAGP-1 is a plasma membrane-bound, glycosylphosphatidylinositol- anchored arabinogalactan-protein. Physiol. Plant. 120:319-327.
39. Tsumuraya, Y., N. Mochizuki, Y. Hashimoto, and P. Kováč. 1990. Purification of an exo-β-(1→3)-D-galactanase of Irpex lacieus (Polyporus tulipiferae) and its action on arabinogalactan-proteins. J. Biol. Chem. 265:7207-7215.
40. van Hengel, A. J., Z. Tadesse, P. Immerzeel, H. Schols, A. van Kammen, and S. C. de Vries. 2001. N-Acetylglucosamine and glycosamine-containing arabinogalactan proteins control somatic embryogenesis. Plant Physiol. 125:1880-1890.
41. van Hengel, A. J., and K. Roberts. 2002. Fucosylated arabinogalactan- proteins are required for full root cell elongation in Arabidopsis. Plant J. 32:105-113.
42. van Hengel, A. J., and K. Roberts. 2003. AtAGP30, an arabinogalactan- protein in the cell walls of the primary root, plays a role in root regeneration and seed germination. Plant J. 36:256-270.
43. Willats, W. G., and J. P. Knox. 1996. A role for arabinogalactan-proteins in plant cell expansion: evidence from studies on the interaction of beta-glucosyl Yariv reagent with seedlings of Arabidopsis thaliana. Plant J. 9:919-925.
44. Wu, H. M., H. Wang, and A. Y. Cheung. 1995. A pollen tube growth stimulatory glycoprotein is deglycosylated by pollen tubes and displays a glycosylation gradient in the flower. Cell 82:395-403.
45. Youl, J. J., A. Bacic, and D. Oxley. 1998. Arabinogalactan-proteins from Nicotiana alata and Pyrus communis contain glycosylphosphatidylinositol membrane anchors. Proc. Natl. Acad. Sci. USA 95:7921-7926.
46. Zverlov, V. V., J. Kellermann, and W. H. Schwarz. 2005. Functional subgenomics of Clostridium thermocellum cellulosomal genes: identification of the major catalytic components in the extracellular complex and detection of three new enzymes. Proteomics 5:3646-3653.