Drug – bio-affecting and body treating compositions – Antigen – epitope – or other immunospecific immunoeffector – Bacterium or component thereof or substance produced by said...
Reexamination Certificate
2006-04-11
2006-04-11
Swartz, Rodney P (Department: 1645)
Drug, bio-affecting and body treating compositions
Antigen, epitope, or other immunospecific immunoeffector
Bacterium or component thereof or substance produced by said...
C424S242100, C424S257100, C435S007370, C435S849000
Reexamination Certificate
active
07025971
ABSTRACT:
Novel methods for the treatment and/or prophylaxis of diseases caused by tissue-adhering bacteria are disclosed. By interacting with periplasmic molecular chaperones it is achieved that the assembly of pili is prevented or inhibited and thereby the infectivity of the bacteria is diminished. Also disclosed are methods for screening for drugs as well as methods for the de novo design of such drugs, methods which rely on novel computer drug modelling methods involving an approximative calculation of binding free energy between macromolecules. Finally, novel pyranosides which are believed to be capable of interacting with periplasmic molecular chaperones are also disclosed.
REFERENCES:
patent: 0464276 (1992-01-01), None
patent: 9104543 (1991-04-01), None
patent: 9302209 (1993-02-01), None
patent: 9506293 (1995-03-01), None
Seib, Paul A., “1,6-Anhydro-4-O-Benzyl-β-D-Glucopyranose”, Carbohydrate Research, 8:101-109, 1968.
Cooper, David B., et al., “Use of Carbohydrate Derivatives for Studies of Phosphorus Stereochemistry, Part I, Stereochemistry of 1,3,2-dioxaphosphorinan-2-ones and Synthesis of Optically Active Phosphine Oxides”, J. Chem Soc. Perkin Trans., 1:1043-1048, 1974.
Haque, Mohammad Ekramul, et al., “Regioselective Monoalkylation of Non-protected Glycopyranosides by the Dibutyltin Oxide Method”, J. Chem. Pharm. Bull., 33:2243-2255, 1985.
Flowers, Harold M., “Selective Benzylation of Some D-galactopyranosides”, Carbohydrate Research, 100:418-423, 1982.
Ullmann, U.R., “An Algorithm for Subgraph Isomorphism”, Journal of the Association for Computing Machinery, vol. 23, No. 1, pp. 31-42, 1976.
Aqvist et al., “A New Method for Predicting Binding Affinity in Computer-aided Drug Design”, Protein Engineering, vol. 7, No. 3, pp. 385-391, 1994.
Messerschmidt et al., “Crystal Orientation and X-ray Pattern Prediction Routiness for Area-Detector Diffractometer Systems in Macromolecular Crystallography”, Journal of Applied Crystallography, v. 20, part 4, pp. 306-315, 1987.
Normark, S. et al., Genetics and Bigenesis ofEscherichia coliAdhesin, In Microbial Lectins and Agglutinins: Properties and Biological Activity, Wiley Interscience Publication, New York, pp. 113-143, 1986.
Wessel, Hans Peter, “Sulfated 1, 6-Anhydro-4-O(β-D-Glucopyranosyluronate)-β-D-Glucopyranosyl Derivatives: Syntheses and Conformations”, Journal of Carbohydrate Chemistry, vol. 11, No. 8, pp. 1039-1052, 1992.
Kuehn et al., Immunoglobulin-like PapD Chaperone Caps and Uncaps Interactive Surfaces of Nascently Translocated Pilus Subunites,Proc. Natl. Acad. Sci. USA, vol. 88, pp. 10586-10590, Dec. 1991.
Striker et al., Stable Pilus Subunit-Chaperone Complexes are Intermediates in Bacterial Pilus Assembly, (abstract 1357),FASEB J., vol. 7, No. 7, p. a1285, 1993.
Weber et al., Pilus Expression by H. Influenza b Requires a Chaperone, (abstract 1071),Ped. Res., vol. 4 (pt. 2), p. 191a, 1992.
Jacob-Dubuisson et al., Initiation of Assembly and Association of the Structural Elemetns of a Bacterial Pilus Depend on Two Specialized Tip Proteins,The EMBO Journal, vol. 12, No. 3, pp. 837-847, 1993.
Rouche et al., Pediatr. Nephrol., vol. 6, pp. 587-596 (1992) “The molecular study of bacterial virulence: a review of current approaches, illustrated by the study of adhesion in uropathogenicEscherichia coli”.
Stoddard et al., Proc. Natl. Acad. Sci., vol. 90, pp 1146-1153 (1993) “Molecular recognition analyzed by docking simulations: The aspartate receptor and isocitrate dehydrogenase fromEschericia coli”.
Smyth “Assays for fimbrial Adhesins” inImmunochemical and molecular genetic analysis of bacterial pathogens, ed. by Owen et al., Elsevier Science Publishers, pp. 334-244 (1988).
Navia et al., Trends Pharamacol. Sci., vol. 14, pp. 189-195 (1993) “Structure-based drug design: applications in immunopharmacology and immunosupression”.
Krogfelt, “Bacterial Adhesins: Genetics, Biogenesis, and Role in Pathogenesis of Fimbrial Adhesins inEscherichia coli”, inReviews of Infectious Diseases, pp. 721-735, The University of Chicago (1991).
Allen, B. L. et al. “Nucleotide Sequence and Functions of mrk Determinants Necessary for Expression of Type 3 Fimbriae inKlebsiella pneumoniae.” J. Bacteriol 173, 916-920.
Amit, A.G. et al. “Three-Dimensional Structure of an Antigen-Antibody Complies at 2.8 A Resolution.” SCIENCE, 230, 747-753, 1986.
Baga, Monica et al. “Biogenesis ofE. coliPap Pili: PapH, a Minor Plin Subunit Involved in Cell Anchoring and Length Modulation.” CELL. 49, 241, 1987.
Bakker, D. et al. “Structure and function of periplasmic chaperone-like proteins involved in the biosynthesis of K88 and K99 fimbriae in enterotoxigenicEscherichia coli.” Molec. Microbiol., 5, 875.
Ben-Naim, A. et al. “Solvation thermodynamics of nonionic solutes.” J. Chem. Phys., 81, 2016-2027.
Bertin, Yolande, et al. “The ClpE protein involved in biogenesis of the cs31A capsule-like antigen is a member of a periplasmic chaperone family in gram-negative bacterial.” FEMS Microbiol. Lett., 108, 59.
Bobbyer, David N. A. et al. “New Hydrogen-Bond Potentials for Use in Determining Energetically Favorable Binding Sites on Molecules of Known Structure.” J. Med. Chem., 32, 1083-1094.
Brint, A.T., et al. “Pharmacophoric pattern matching in files of 3D chemical structures: comparison of geometric searching algorithms.” J. Mol. Graphics, 5, 49-56.
Chandler, David et al. “Van der Waals Picture of Liquids, Solids, and Phase Transformations.” SCIENCE, 220, 787-794.
Chemical Abstracts, RN 149563-08-6 (p. 88, line 2).
Clouthier, Sharon C. et al. “Characterization of Three Fimbrial Genes, sefABC, ofSalmonella enteritidis.” J. Bacteriol., 175, 2523.
Dodson, Karen W. et al. “Outer-membrane PapC molecular usher discriminately recognizes periplasmic chaperone-pilos subunit complexes.” Proc. Natl. Acad. Sci. 1993, 90 3670-3674.
Galyov, E.E. et al. “Expression of the envelope antigen F1 ofYersinia pestisis mediated by the product of cafLM gene having homology with the chaperone protein PapD ofEscherichia coli.” FEBS Lett., 286, 79.
Gerlach, Gerald-F. et al. “Identification and Characterization of the Genes encoding the Type 3 and Type 1 Fimbrial Ahesins ofKlebsiella pneumonia.” J. Bacteriol., 171-1262-70.
Goodford, P. J. “A Computational Procedure for Determining Energetically Favorable binding sites on Biologically Important Macromolecules.” J. Med. Chem. 1985, 28, 849-857.
Hirschmann, Ralph et al. “Nonpeptidal Peptidomimetics with a β-D-Glucose Scaffolding. A Parial Somatostatin Agonist Bearing a Close Structural Relationship to a Potent, Selective Substance P. Antagonist.” J. Am. Chem. Soc. 1992, 114, 9217-9218.
Holmgren, Anders et al. “Preliminary X-ray Study of PapD Crystals from UropathogenicEscherichia coli.” J. Mol. Biol. 203, 279, 1988.
Holmgren, Anders et al. “Crystal structure of chaperone protein PapD reveals an immunoglobulin fold.” NATURE 342, 248, 1989.
Holmgren, Anders et al. “Conserved immunoglobulin-like features in a family of periplasmic pilus chaperones in bacteria.” The EMBO Journal, 11, 4, 1617-1622.
Hultgren, Scott J. et al. “The PapG adhesin of uropathogenicEscherichia colicontains separate regions for receptor binding and for the incorporation into the pilus.” Proc. Natl. Acad. Sci. USA, 86, 4357.
Hultgren, Scott J. et al. “Chaperone-Assisted Assembly and molecular Architecture of Adhesive Pili.” Annu. Rev. Microbiol., 45, 383-415.
Hällgren, Christer et al. “Synthesis of a Site-Specific Deuterium Substituted Methyl-β-D—glucan decasaccharide.” J. Carbohydr. 12 (3), 309-333.
Iriate, Maite et al. “The Myf fibrillae ofYersina enterocolitica.” Mol. M
Harris Mark
Hultgren Scott
Jones Charles Hal
Kihlberg Jan
Kuehn Meta
Burns Doane Swecker & Mathis L.L.P.
SIGA Pharmaceuticals, Inc.
Swartz Rodney P
Washington University
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