A super-channel in bacteria: Macro-molecule uptake and depolymerization systems of sphingomonas sp. a1 with a special cell surface structure

Biotechnology and Genetic Engineering Reviews

Volumn 19, Issue 1, 2002, Pages 105-120

  Mishima, Yumiko ^a   Momma, Keiko ^a   Miyake, Osamu ^a   Hashimoto, Wataru ^a   Murata, Kousaku ^a   Mikami, Bunzo ^a  

^a KYOTO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

CELL SURFACES; SPHINGOMONAS SP; SUPERCHANNEL;

CELL MEMBRANES;

ABC TRANSPORTER; ALGINIC ACID; LYASE; PERMEASE;

BACTERIAL MEMBRANE; CELL MEMBRANE TRANSPORT; CELL SURFACE; DEPOLYMERIZATION; MACROMOLECULE; MEMBRANE CHANNEL; NONHUMAN; PROTEIN BINDING; REVIEW; SPHINGOMONAS; TRANSPORT KINETICS;

BACTERIA (MICROORGANISMS); SPHINGOMONAS; SPHINGOMONAS SP.;

EID: 0036917063     PISSN: 02648725     EISSN: 20465556     Source Type: Journal    
DOI: 10.1080/02648725.2002.10648025     Document Type: Article

References (59)

1. Aleshin, E. A., Golubev, A., Firsov, L. M. and Honzatko, R. B. (1992). Crystal structure of glucoamylase from Aspergillus awamori var. X100 to 2. 2Å resolution. Journal of Biological Chemistry 267, 19291-19298.
2. Ames, G. F. -L. and Lecar, H. (1992). ATP-dependent bacterial transporters and cystic fibrosis: analogy between channels and transporters. FASEB Journal 6, 2660-2666.
3. Ames, G. F. L., Mimura, C., Holbrook, S. and Shyamala, V. (1992). Traffic ATPases: a superfamily of transport proteins operating from Escherichia coli to humans. Advances in Enzymology and Related Areas of Molecular Biology 65, 1-47.
4. andersen, C., Hughes, C. and Koronakis, V. (2000). Chunnel vision-export and efflux through bacterial channel-tunnels. EMBO Reports 1, 313-318.
5. Carafoli, E., Genazzani, A. and Guerini, D. (1999). Calcium controls the transcription of its own transporters and channels in developing neurons. Biochemical and Biophysical Research Communications 266, 624-632.
6. Chakrabarty, A. M. (1991). Molecular genetics and environmental regulation of alginate biosynthesis. Applied Phycology 8, 583-590.
7. Davies, G. J., Wilson, K. S. and Henrissat, B. (1997). Nomenclature for sugar-binding subunits in glycosyl hydrolases. Biochemical Journal 15, 557-559.
8. Diederichs, K., Diez, J., Greller, G., Muller, C., Breed, J., Schnell, C., Vonrhein, C., Boos, W. and Welte, W. (2000). Crystal structure of MalK, the ATPase subunit of the trehalose/maltose ABC transporter of the archaeron Thermococcus litoralis. EMBO Journal 19, 5951-5961.
9. Duplay, P., Bedouelle, H., Fowler, A., Zabin, I., Saurin, W. and Hofnung, M. (1984). Sequences of the malE gene and its product, the maltose-binding protein of Escherichia coli K12. Journal of Biological Chemistry 259, 10606-10613.
10. Ehrmann, M., Ehrle, R., Hofmann, E., Boos, W. and Schlosser, A. (1998). The ABC maltose transporter. Molecular Microbiology 29, 685-694.
11. Gacesa, P. (1987). ALGINATE-MODIFYING ENZYMES. A PROPOSED UNIFIED MECHANISM OF ACTION FOR THE LYASES AND EPIMERASES. FEBS Letters 212, 199-202.
12. Gase, K., OzegowskI, J. and Malk, H. (1998). The Streptococcus agalactiae hlyB gene encoding hyaluronate lyase: completion of the sequence and expression analysis. Biochimica et Biophysica Acta 1398, 86-98.
13. Gilson, E., Nikaido, H. and Hofnung, M. (1982). SEQUENCE OF THE malK gene in E. coli K12. Nucleic Acids Research 10, 7449-7458.
14. Greiling, H., Stuhlsatz, H. W., Eberhard, T. and Eberhard, A. (1975). Studies on the mechanism of hyaluronate lyase action. Connective Tissue Research 3, 135-139.
15. Harding, S. E., Davis, S. S., Deacon, M. P. and Fiebrig, I. (1999). Biopolymer muco-adhestves. Biotechnology and Genetic Engineering Reviews 16, 41-86.
16. Hashimoto, W., Okamoto, M., Hisano, T., Momma, K. and Murata, K. (1998a). Sphingomonas sp. A1 lyase active on both poly-13-D-mannuronate and heteropolymeric regions in alginate. Journal of Fermentation and Bioengineering 86, 236-238.
17. Hashimoto, W., Sato, N., Kimura, S. and Murata, K. (1998b). Polysaccharide iyase: Molecular cloning of gellan lyase gene and formation of the lyase from a huge precursor protein in Bacillus sp. GL1. Archives of Biochemistty and Biophysics 354, 31-39.
18. Hashimoto, W., Miyake, O., Momma, K., Kawai, S. and Murata, K. (2000). Molecular identification of oligoalginate lyase of Sphingomonas sp. strain A1 as one of the enzymes required for complete depolymerization of alginate. Journal of Bacteriology 182, 4572-4577.
19. Hashimoto, W., Miki, H., Tsuchiya, N., Nankai, H. and Murata, K. (2001). Polysaccharide lyase: molecular cloning, sequencing, and overexpression of xanthan lyase gene of Bacillus sp. strain GL1. Applied and Environmental Microbiology 67, 713-720.
20. Higgins, C. F. (1992). ABC transporters: from microorganisms to man. Annual Review of Cell Biology 8, 67-113.
21. Hisano, T., Yamaguchi, H., Yonemoto, Y., Sakaguchi, K, Yamashita, T., Abe, S., Kimura, A. and Murata, K. (1993a). Bacterial alginate iyase inactive on alginate biosynthesized by Pseudomonas aeruginosa. Journal of Fermentation and Bioengineering 75, 220-222.
22. Hisano, T., Nishimura, M., Yonemoto, Y., Abe, S., Yamashita, T., Sakaguchi, K., Kimura, A. and Murata, K. (1993b). Bacterial alginate lyase highly active on acetylated alginates. Journal of Fermentation and Bioengineering 75, 332-335.
23. Hisano, T., Nishimura, M., Yamashita, T., Sakaguchi, K. and Murata, K. (1994). On the self-processing of bacterial alginate lyase. Journal of Fermentation and Bioengineering 78, 109-110.
24. Hisano, T., Yonemoto, Y., Yamashita, T., Fukuda, Y., Kimura, A. and Murata, K. (1995). Direct uptake of alginate molecules through a pit on the bacterial cell surface: a novei mechanism for the uptake of macromolecules. Journal of Fermentation and Bioengineering 79, 538-544.
25. Hisano, T., Kimura, N., Hashimoto, W. and Murata, K. (1996). PIT STRUCTURE ON BACTERIAL CELL SURFACE. Biochemical and Biophysical Research Communications 220, 979-982.
26. Hor, L. I. and Shuman, H. A. (1993). Genetic analysis of periplasmic binding protein-dependent transport in Escherichia coli. Each lobe of maltose-binding protein interacts with a different subunit of the MalFGK2 membrane transport complex. Journal of Molecular Biology 233, 659-670.
27. Hung, L. W., Wang, I. X., Nikaido, K., Liu, P. Q., Ames, G. F. and Kim, S. H. (1998). Crystal structure of the ATP-binding subunit of an ABC transporter. Nature 396, 703-707.
28. Hunke, S., Mourez, M., Jehanno, M., Dassa, E. and Schneider, E. (2000). ATP modulates the subunit-subunit interaction in an ATP-binding cassette transporter (MalFGK2) determined by site-directed chemical cross-linking. Journal of Biological Chemistry 275, 15526-15534.
29. Hyde, S. C., Emsley, P., Hartshorn, M. J., Mimmack, M. M., Gileadi, U., Pearce, S. R., Gallagher, M. P., Gill, D. R., Hubbard, R. E. and Higgins, C. F. (1990). Structural model of ATP-binding proteins associated with cystic fibrosis, muitidrug resistance and bacterial transport. Nature 346, 362-365.
30. Iron, T., Mskami, B., Maru, I., Ohta, Y., Hashimoto, W. and Murata, K. (2000). Crystal structure of JV-acyl-D-giucosamine 2-epimerase from porcine kidney at 2. 0A resolution. Journal of Molecular Biology 303, 733-744.
31. Jones, P. M. and George, A. M. (1999). Subunit interactions in ABC transporters: towards a functional architecture. FEMS Microbiology Letters 179, 187-202.
32. Juy, M., Amit, A. G., Alzari, P. M., Poljak, R. J., Claeyssens, M., Bguin, P. and Aubert, J. (1992). Three-dimensional structure of a thermostable bacterial cellulase. Nature 357, 89-91.
33. Kellerman, O. and Szmelcman, S. (1974). Active transport of maltose in Escherichia coli K-12. Involvement of a periplasmic maltose-binding protein. European Journal of Biochemistry 47, 139-149.
34. Linhardt, R. J., Galliher, P. M. and Coney, C. L. (1986). Polysaccharide lyases. Applied Biochemistry and Biotechnology 12, 135-176
35. Mikami, B., Hisano, T., Yamashita, T., Inose, T., Takagi, M., Sakaguchi, K., Kimura, A., Imanaka, T. and Murata, K. (1994). Crystallization and preliminary X-ray diffraction studies of bacterial alginate lyase. Journal of Fermentation and Bioengineering 77, 691
36. Mishima, Y., Momma, K., Hashimoto, W., Mikami, B. and Murata, K. (2001). Crystallization and preliminary X-ray analysis of AlgS: a bacterial ATP-binding-cassette (ABC) protein specific to macromolecule import. Acta Crystallographies. Section D 57 884-885.
37. Momma, K., Okamoto, M., Mishima, Y., Mori, S., Hashimoto, W. and Murata, K. (2000). A novel bacterial ATP-binding cassette (ABC) transporter system that allows uptake of macromolecules. Journal of Bacteriology 182, 3998-4004.
38. Momma, K., Mikami, B., Mishima, Y., Hashimoto, W. and Murata, K. (2002). Crystal structure of AlgQ2, a macromolecule (alginate)-binding protein of Sphingomonas sp. AI at 2. 0 Å resolution. Journal of Molecular Biology 316, 1061-1069.
39. Morbach, S., Tebbe, S. and Schneider, E. (1993). The ATP-binding cassette (ABC) transporter for maltose/maltodextrins of Salmonella typhimurium. Characterization of the ATPase acti vi ty associated with the purified MalK subunit. Journal of Biological Chemistry 268, 18617-18621.
40. Murata, K, (1994). BACTERIAL ALGINATE LYASE: ENZYMATIC AND GENETIC ASPECTS OF THE LYASE AND ITS APPLICATION TO AGRICULTURAL, FOOD, AND PHARMACEUTICAL PROCESSES. Comments on Agricultural and Food Chemistry 3, 87-110.
41. Murata, K., Inose, T., Hisano, T., Abe, S., Yonemoto, Y., Yamashita, T., Takagi, M., Sakaguchi, K., Kimura, A. and Imanaka, T. (1993). Bacterial alginate lyase: enzym-ology, genetics and appl ication. Journal of Femwntation and Bioengineering 76, 427-437.
42. Nikaido, K., Liu, P. -Q. and Ames, G. F. -L. (1997). Purification and characterization of HisP, the ATP-binding subunit of a traffic ATPase (ABC transporter), the histidine permease of Salmonella typhimurium. Journal of Biological Chemistry 272, 27745-27752.
43. Overduin, P., Boos, W. and Tommassen, J. (1988). Nucleotide sequences of the ugp genes of Escherichia coli K-12: homology to the maltose system. Molecular Microbiology 2, 767-775.
44. Peitsch, M. C. (1996). ProMod and Swiss-Model: Internet-based tools for automated comparative protein modelling. Biochemical Society Transactions 24, 274-279.
45. Ponnuraj, K. and Jedrzejas, M. J. (2000). MECHANISM OF HYALURONAN BINDING AND DEGRADATION STRUCTURE of Streptococcus pneumoniae hyaluronate lyase in complex with hyaluronic acid disaccharide at i. 7 A resolution. Journal of Molecular Biology 299, 885-895.
46. Preiss, J. and Ashwell, G. (1962). Alginic acid metabolism in bacteria. Journal of Biological Chemistry 237. 309-316.
47. Rampiial, R. and Pier, G. B. (1985). Role of Pseudomonas aeruginosa mucoid exopolysaccharide in adherence to tracheal cells. Infection and Immunity 47, 1-4.
48. Saurin, W. and Dassa, E. (1994). SEQUENCE RELATIONSHIPS BETWEEN INTEGRAL INNER MEMBRANE PROTEINS OF BINDING PROTEIN-DEPENDENT TRANSPORT SYSTEMS: EVOLUTION BY RECURRENT GENE DUPLICATIONS. Protein Science 3, 325-344.
49. Sharff, A. I., Rodseth, L. E., Spuruno, J. C. and Quiocho, F. A. (1992). Cryslallographic evidence of a large ligand induced high-twist motion between the two domains of the mahodextrin binding protein involved in active transport and chemotaxis. Biochemistry 31, 10657-10663.
50. Spurlino, J. C., Lu, G. -Y. and Quiocho, F. A. (1991). The 2. 3-A resolution structure of the maltose- or maltodextrin-binding protein, a primary receptor of bacterial active transport and chemotaxis. Journal of Biological Chemistry 266, 5202-5219.
51. Tombs, M. P. and Harding, S. E. (1999) An introduction to polysaccharide biotechnology. London and New York: Taylor and Francis.
52. Walker, J. E., Saraste, M., Runswick, M. J. and Gay, N. J. (1982). Distantly related sequences in the a- and i-subunits of ATP synthase, myosin, kinases and other ATP-requiring enzymes, and a common nucleotide-binding fold. EMBO Journal 1, 945-951.
53. Yonemoto, Y., Murata, K., Kimura, A., Yamaguchi, H. and Okayama, K. (1991). Bacterial Alginate Lyase: Characterization Of Alginate Lyase-Producing Bacteria And Purification Of The Enzyme. Journal Of Fermentation And Bioengineering 72, 152-157.
54. Yonemoto, Y., Tanaka, H., Hisano, T., Sakaguchi, K., Abe, S., Yamashita, T., Kimura, A. and Murata, K. (1993). Bacterial alginate lyase gene: nucleotide sequence and molecular route for generation of alginate lyase species. Journal of Fermentation and Bioengineering 75, 336-342.
55. Yoon, H. -J. (2001). Crystallographic studies on structure of alginate lyases of Sphingomonas species Al. Ph, D. thesis. Kyoto University, Kyoto, Japan.
56. Yoon, H. -J., Mikami, B., Hashimoto, W. and Murata, K. (1999). Crystal structure of alginate lyase Al-HI from Sphingomonas species Al at 1. 78A resolution. Journal of Molecular Biology 290. 505-514.
57. Yoon, H. -J., Hashimoto, W., Miyake, O., Okamoto, M., Mikami, B. and Murata, K. (2000a). OVEREXPRESSION IN Escherichia coli, purification, and characterization of Sphingomonas sp. Al alginate lyases. Protein Expression and Purification 19, 84-90.
58. Yoon, H. -J., Hashimoto, W., Katsuya, Y., Mezaki, Y., Murata, K. and Mikami, B. (2000b). Crystallization and preliminary X-ray crystallographic analysis of alginate lyase Al-II from Sphingomonas species Al. Biochimica et Biophysica Acta 1476. 382-385.
59. Yoon, H. -J., Hashimoto, W., Miyake, O., Murata, K. and Mikami, B. (2001). CRYSTAL STRUCTURE OF ALGINATE LYASE A1-IH COMPLEXED WITH TRISACCHARIDE PRODUCT AT 2. 0A RESOLUTION. Journal of Molecular Biology 307. 9-16.