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Volumn 59, Issue 4, 2008, Pages 439-451

Modeling and biochemical analysis of the activity of antibiofilm agent Dispersin B

Author keywords

Biofilm; Dispersin B; Exo acting; HPLC; Hydrolysis; Molecular modeling

Indexed keywords

BACTERIAL POLYSACCHARIDE; BACTERIAL PROTEIN; DISPERSIN B, ACTINOBACILLUS ACTINOMYCETEMCOMITANS; GLYCOSIDASE; LIGAND; OLIGOSACCHARIDE;

EID: 57549084294     PISSN: 02365383     EISSN: 1588256X     Source Type: Journal    
DOI: 10.1556/ABiol.59.2008.4.5     Document Type: Article
Times cited : (22)

References (27)
  • 1
    • 0035665229 scopus 로고    scopus 로고
    • The linear interaction energy method for predicting ligand binding free energies
    • Aqvist, J., Marelius, J. (2001) The linear interaction energy method for predicting ligand binding free energies. Comb. Chem. High Throughput Screen 4, 613-626.
    • (2001) Comb. Chem. High Throughput Screen , vol.4 , pp. 613-626
    • Aqvist, J.1    Marelius, J.2
  • 2
    • 0002775934 scopus 로고
    • Interaction models for water in relation to protein hydration
    • Reidel, D. (ed.) Dordrecht, The Netherlands
    • Berendsen, H. J., Postma, J. P., M. Van Gunsteren, W. F., Hermans, J. (1981) Interaction models for water in relation to protein hydration. In: Reidel, D. (ed.) Intermolecular Forces. Dordrecht, The Netherlands, pp. 331-342.
    • (1981) Intermolecular Forces , pp. 331-342
    • Berendsen, H.J.1    Postma, J.P.2    M. Van Gunsteren, W.F.3    Hermans, J.4
  • 4
    • 0031015902 scopus 로고    scopus 로고
    • Nomenclature for sugar-binding subsites in glycosyl hydrolases
    • Pt2
    • Davies, G. J., Wilson, K. S., Henrissat, B. (1997) Nomenclature for sugar-binding subsites in glycosyl hydrolases. Biochem. J. 321(Pt 2) 557-559.
    • (1997) Biochem. J. , vol.321 , pp. 557-559
    • Davies, G.J.1    Wilson, K.S.2    Henrissat, B.3
  • 5
    • 84986519235 scopus 로고
    • Parameterization and evaluation of a flexible water model
    • Ferguson, D. (1995) Parameterization and evaluation of a flexible water model. J. Comput. Chem. 16, 501-511.
    • (1995) J. Comput. Chem. , vol.16 , pp. 501-511
    • Ferguson, D.1
  • 6
    • 0033386211 scopus 로고    scopus 로고
    • Tenacious adhesion of Actinobacillus actinomycetemcomitans strain CU1000 to salivary-coated hydroxyapatite
    • Fine, D. H., Furgang, D., Kaplan, J., Charlesworth, J., Figurski, D. H. (1999) Tenacious adhesion of Actinobacillus actinomycetemcomitans strain CU1000 to salivary-coated hydroxyapatite. Arch. Oral. Biol. 44, 1063-1076.
    • (1999) Arch. Oral. Biol. , vol.44 , pp. 1063-1076
    • Fine, D.H.1    Furgang, D.2    Kaplan, J.3    Charlesworth, J.4    Figurski, D.H.5
  • 7
    • 0000388705 scopus 로고    scopus 로고
    • LINCS: A linear constraint solver for molecular simulations
    • Hess, B., Bekker, H., Berendsen, H. J. C., Fraaije, J. G. E. M (1997) LINCS: A linear constraint solver for molecular simulations. J. Comp. Chem. 18, 1463-1472.
    • (1997) J. Comp. Chem. , vol.18 , pp. 1463-1472
    • Hess, B.1    Bekker, H.2    Berendsen, H.J.C.3    Fraaije, J.G.E.M.4
  • 8
    • 11144330206 scopus 로고    scopus 로고
    • Depolymerization of beta-1,6-N-acetyl-D-glucosamine disrupts the integrity of diverse bacterial biofilms
    • Itoh, Y., Wang, X., Hinnebusch, B. J., Preston, J. F. 3rd, Romeo, T. (2005) Depolymerization of beta-1,6-N-acetyl-D-glucosamine disrupts the integrity of diverse bacterial biofilms. J. Bacteriol. 187, 382-387.
    • (2005) J. Bacteriol. , vol.187 , pp. 382-387
    • Itoh, Y.1    Wang, X.2    Hinnebusch, B.J.3    Preston III, J.F.4    Romeo, T.5
  • 9
  • 10
    • 0037315166 scopus 로고    scopus 로고
    • Biofilm growth and detachment of Actinobacillus actinomycetemcomitans
    • Kaplan, J. B., Meyenhofer, M. F., Fine, D. H. (2003) Biofilm growth and detachment of Actinobacillus actinomycetemcomitans. J. Bacteriol. 185, 1399-1404.
    • (2003) J. Bacteriol. , vol.185 , pp. 1399-1404
    • Kaplan, J.B.1    Meyenhofer, M.F.2    Fine, D.H.3
  • 11
    • 0042061049 scopus 로고    scopus 로고
    • Detachment of Actinobacillus actinomycetemcomitans biofilm cells by an endogenous beta-hexosaminidase activity
    • Kaplan, J. B., Ragunath, C., Ramasubbu, N., Fine, D. H. (2003) Detachment of Actinobacillus actinomycetemcomitans biofilm cells by an endogenous beta-hexosaminidase activity. J. Bacteriol. 185, 4693-4698.
    • (2003) J. Bacteriol. , vol.185 , pp. 4693-4698
    • Kaplan, J.B.1    Ragunath, C.2    Ramasubbu, N.3    Fine, D.H.4
  • 13
    • 0035845496 scopus 로고    scopus 로고
    • Solvent interactions determine carbohydrate conformation
    • Kirschner, K. N., Woods, R. J. (2001) Solvent interactions determine carbohydrate conformation. Proc. Natl. Acad. Sci. USA 98, 10541-10545.
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 10541-10545
    • Kirschner, K.N.1    Woods, R.J.2
  • 15
    • 0035789518 scopus 로고    scopus 로고
    • GROMACS 3.0: A package for molecular simulation and trajectory analysis
    • Lindahl, E., Hess, B., van der Spoel, D. (2001) GROMACS 3.0: a package for molecular simulation and trajectory analysis. J. Mol. Model. 7, 306-317.
    • (2001) J. Mol. Model. , vol.7 , pp. 306-317
    • Lindahl, E.1    Hess, B.2    Van Der Spoel, D.3
  • 16
    • 0035831255 scopus 로고    scopus 로고
    • Relationship of sequence and structure to specificity in the alpha-amylase family of enzymes
    • MacGregor, E. A., Janecek, S., Svensson, B. (2001) Relationship of sequence and structure to specificity in the alpha-amylase family of enzymes. Biochim. Biophys. Acta 1546, 1-20.
    • (2001) Biochim. Biophys. Acta , vol.1546 , pp. 1-20
    • MacGregor, E.A.1    Janecek, S.2    Svensson, B.3
  • 17
    • 0037414455 scopus 로고    scopus 로고
    • The X-ray crystal structure of human beta-hexosaminidase B provides new insights into Sandhoff disease
    • Maier, T., Strater, N., Schuette, C. G., Klingenstein, R., Sandhoff, K., Saenger, W. (2003) The X-ray crystal structure of human beta-hexosaminidase B provides new insights into Sandhoff disease. J. Mol. Biol. 328, 669-681.
    • (2003) J. Mol. Biol. , vol.328 , pp. 669-681
    • Maier, T.1    Strater, N.2    Schuette, C.G.3    Klingenstein, R.4    Sandhoff, K.5    Saenger, W.6
  • 18
    • 0035971079 scopus 로고    scopus 로고
    • Crystallographic evidence for substrate-assisted catalysis in a bacterial beta-hexosaminidase
    • Mark, B. L., Vocadlo, D. J., Knapp, S., Triggs-Raine, B. L., Withers, S. G., James, M. N. (2001) Crystallographic evidence for substrate-assisted catalysis in a bacterial beta-hexosaminidase. J. Biol. Chem. 276, 10330-10337.
    • (2001) J. Biol. Chem. , vol.276 , pp. 10330-10337
    • Mark, B.L.1    Vocadlo, D.J.2    Knapp, S.3    Triggs-Raine, B.L.4    Withers, S.G.5    James, M.N.6
  • 19
    • 84986440341 scopus 로고
    • SETTLE: An analytical version of the SHAKE and RATTLE algorithms for rigid water models
    • Miyamoto, S., Kollman, P. A. (1992) SETTLE: An analytical version of the SHAKE and RATTLE algorithms for rigid water models. J. Comp. Chem. 13, 952-962.
    • (1992) J. Comp. Chem. , vol.13 , pp. 952-962
    • Miyamoto, S.1    Kollman, P.A.2
  • 20
    • 0037474545 scopus 로고    scopus 로고
    • Probing the role of a mobile loop in substrate binding and enzyme activity of human salivary amylase
    • Ramasubbu, N., Ragunath, C., Mishra, P. J. (2003) Probing the role of a mobile loop in substrate binding and enzyme activity of human salivary amylase. J. Mol. Biol. 325, 1061-1076.
    • (2003) J. Mol. Biol. , vol.325 , pp. 1061-1076
    • Ramasubbu, N.1    Ragunath, C.2    Mishra, P.J.3
  • 21
    • 19444383900 scopus 로고    scopus 로고
    • Structural analysis of dispersin B, a biofilm-releasing glycoside hydrolase from the periodontopathogen Actinobacillus actinomycetemcomitans
    • Ramasubbu, N., Thomas, L. M., Ragunath, C., Kaplan, J. B. (2005) Structural analysis of dispersin B, a biofilm-releasing glycoside hydrolase from the periodontopathogen Actinobacillus actinomycetemcomitans. J. Mol. Biol. 349, 475-486.
    • (2005) J. Mol. Biol. , vol.349 , pp. 475-486
    • Ramasubbu, N.1    Thomas, L.M.2    Ragunath, C.3    Kaplan, J.B.4
  • 22
    • 0021403590 scopus 로고
    • Black-pigmented Bacteroides species, Capnocytophaga species, and Actinobacillus actinomycetemcomitans in human periodontal disease: Virulence factors in colonization, survival, and tissue destruction
    • Slots, J., Genco, R. J. (1984) Black-pigmented Bacteroides species, Capnocytophaga species, and Actinobacillus actinomycetemcomitans in human periodontal disease: virulence factors in colonization, survival, and tissue destruction. J. Dent. Res. 63, 412-421.
    • (1984) J. Dent. Res. , vol.63 , pp. 412-421
    • Slots, J.1    Genco, R.J.2
  • 23
    • 0030158429 scopus 로고    scopus 로고
    • PRODRG, a program for generating molecular topologies and unique molecular descriptors from coordinates of small molecules
    • Van Aalten, D. M., Bywater, R., Findlay, J. B., Hendlich, M., Hooft, R. W., Vriend, G. (1996) PRODRG, a program for generating molecular topologies and unique molecular descriptors from coordinates of small molecules. J. Comput. Aided Mol. Des. 10, 255-262.
    • (1996) J. Comput. Aided Mol. Des. , vol.10 , pp. 255-262
    • Van Aalten, D.M.1    Bywater, R.2    Findlay, J.B.3    Hendlich, M.4    Hooft, R.W.5    Vriend, G.6
  • 25
    • 0001398008 scopus 로고    scopus 로고
    • How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?
    • Wang, J., Cieplak, P., Kollman, P. A. (2000) How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules? J. Comput. Chem. 21, 1049-1074.
    • (2000) J. Comput. Chem. , vol.21 , pp. 1049-1074
    • Wang, J.1    Cieplak, P.2    Kollman, P.A.3
  • 27
    • 0021911144 scopus 로고
    • Actinobacillus actinomycetemcomitans in human periodontal disease
    • Zambon, J. J. (1985) Actinobacillus actinomycetemcomitans in human periodontal disease. J. Clin. Periodontol. 12, 1-20.
    • (1985) J. Clin. Periodontol , vol.12 , pp. 1-20
    • Zambon, J.J.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.