Chemistry: molecular biology and microbiology – Enzyme – proenzyme; compositions thereof; process for... – Transferase other than ribonuclease
Reexamination Certificate
2005-10-04
2010-02-23
Steadman, David J (Department: 1656)
Chemistry: molecular biology and microbiology
Enzyme , proenzyme; compositions thereof; process for...
Transferase other than ribonuclease
Reexamination Certificate
active
07666646
ABSTRACT:
The present invention relates to the X-ray analysis of crystalline molecules or molecular complexes of human Pim-1. The present invention also relates to Pim-1-like binding pockets. The present invention provides a computer comprising a data storage medium encoded with the structure coordinates of such binding pockets. This invention also relates to methods of using the structure coordinates to solve the structure of homologous proteins or protein complexes. In addition, this invention relates to methods of using the structure coordinates to screen for and design compounds, including inhibitory compounds, that bind to Pim-1 protein, Pim-1 protein complexes, or homologues thereof. The invention also relates to crystallizable compositions and crystals comprising Pim-1 protein, Pim-1 protein complexes with adenosine, staurosporine or 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one and methods to produce these crystals.
REFERENCES:
patent: 4886646 (1989-12-01), Carter et al.
patent: 5096676 (1992-03-01), McPherson et al.
patent: 5130105 (1992-07-01), Carter et al.
patent: 5221410 (1993-06-01), Kushner et al.
patent: 5400741 (1995-03-01), DeTitta et al.
patent: 5884230 (1999-03-01), Srinivasan et al.
patent: 2004/0142864 (2004-07-01), Bremer et al.
patent: 2004/0171062 (2004-09-01), Hirth et al.
McPherson et al., Eur. J. Biochem. 189:1-23, 1990.
Branden et al., “Introduction to Protein Structure Second Edition”, Garland Publishing Inc., New York, 1999, pp. 374-375.
Drenth, “Principles of X-ray Crystallography,” Springer, New York, 1995, pp. 1-21.
“Crystallization of Nucleic Acids and Proteins,” Ed. Ducruix and Giege, Oxford University Press, New York, 1999 at p. 394.
Qian et al. Acta crystallographica Section F, Structural biology and crystallization communications, (Jan. 1, 2005) vol. 61, No. Pt 1, pp. 96-99.
Kierzek et al., Biophys Chem 91:1-20, 2001.
Ford et al., “Fusion Tails for the Recovery and Purification of Recombinant Proteins”, Prot. Exp. Purif. 2:95-107, 1991.
Giacovazzo et al., “Fundamentals of Crystallography, Second Edition”, Oxford University Press, New York, NY, 2002, p. 744.
GenBank Accession No. P11309, Dec. 1998.
Gonzalez et al., Eur. J. Biochem. 268, 1869-1875, 2001.
Novagen Technical Bulletin TB045, “pET-15b Vector”, Dec. 1998.
Allen et al., “Pim-2 Transgene Induces Lymphoid Tumors, Exhibiting Potent Synergy with c-myc”, Oncogene, 15: 1133-1141 (1997).
Amson et al., “The Human Protooncogene Product p33pim Is Expressed During Fetal Hematopoiesis and in Diverse Leukemias”,Proc. Natl. Acad. Sci. USA,86: 8857-8861 (1989).
Balbes et al., “A Perspective of Modem Methods in Computer-Aided Drug Design”,Rev. in Comp. Chem.,5: 337-379 (1994).
Bartlett et al., “CAVEAT: A Program to Facilitate the Structure-Derived Design of Biologically Active Molecules”,Mol. Recognition,78:182-196 (1989).
Bax et al., “The Structure of Phosphorylated GSK-3β Complexed with a Peptide, FRATtide, that Inhibits β-Catenin Phosphorylation”,Structure,9: 1143-1152 (2001).
Berg et al., “K-252a Inhibits Nerve Growth Factor-InducedtrkProto-Oncogene Tyrosine Phosphorylation and Kinase Activity”,J. Biol. Chem.,5: 13-16 (1992).
Bhattacharya et al., “Pim-1 Associates with Protein Complexes Necessary for Mitosis”,Chromosome,111: 80-95 (2002).
Blundell et al., “Knowledge-Based Prediction of Protein Structures and the Design of Novel Molecules”,Nature,326: 347-352 (1987).
Böhm, “The Computer Program LUDI: A New Method for the De Novo Design of Enzyme Inhibitors”,J. Comp. Aid. Molec. Design, 6: 61-78 (1992).
Breuer et al., “Carcinogen-Induced Lymphomagenesis inpim-1 Transgenic Mice: Dose Dependence and Involvement ofmycandras”, Cancer Res.,51: 958-963 (1991).
Brünger et al., “Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination”,Acta Cryst.,D54: 905-921 (1998).
Carson, “Ribbons 2.0”,J. Appl., Cryst.,24: 958-961 (1991).
Chayen, “A Novel Technique to Control the Rate of Vapour Diffusion, Giving Larger Protein Crystals”,J. Appl. Cryst.,30: 198-202 (1997).
Cheetham et al., “Crystal Structure of Aurora-2, an Oncogenic Serine/Threonine Kinase”,J. Biol. Chem.,277: 42419-42422 (2002).
Cohen et al., “Molecular Modeling Software and Methods for Medicinal Chemistry”,J. Med. Chem.,33: 883-894 (1990).
Cohen, “Protein Kinases—The Major Drug Targets of the Twenty-First Century?”,Nat. Rev. Drug Discov.,1: 309-315 (2002).
Cory et al., “MATCHMOL, An Interactive Computer Graphics Procedure for Superposition of Molecular Models”,J. Mol. Graphics,2: 39-42 (1984).
D'Arcy et al., “A Novel Approach to Crystallising Proteins under Oil”,J. Cryst Growth,168: 175-180 (1996).
Davies et al., “Specificity and Mechanism of Action of Some Commonly Used Protein Kinase Inhibitors”,Biochem. J.,351: 95-105 (2000).
De Bondt et al., “Crystal Structure of Cyclin-Dependent Kinase 2”,Nature,363: 595-602 (1993).
Domen et al., “Analysis ofPim-1 Function in Mutant Mice”,Leukemia,7: S108-S112 (1993).
Domen et al., “Pim-1 Levels Determine the Size of Early B Lymphoid Compartments in Bone Marrow”,J. Exp. Med.,178: 1665-1673 (1993).
Dumas, “Protein Kinase Inhibitors: Emerging Pharmacophores 1997-2000”,Exp. Opin. Ther. Patents,11: 405-429 (2001).
Eisen et al., “HOOK: A Program for Finding Novel Molecular Architectures that Satisfy the Chemical and Steric Requirements of a Macromolecule Binding Site”,Proteins: Struct. Funct. Genet.,19: 199-221 (1994).
El-kholy et al., “The Phosphatidylinositol 3-Kinase Inhibitor LY294002 Potently Blocks Kv Currents via a Direct Mechanism”,FASEB J.,17: 720-738 (2003) [copy enclosed published online Feb. 5, 2003].
Ethier et al., “LY294002, but Not Wortmannin, Increases Intracellular Calcium and Inhibits Calcium Transients in Bovine and Human Airway Smooth Muscle Cells”,Cell Calcium,32: 31-38 (2002).
Feldman et al., “KID-1, A Protein Kinase Induced by Depolarization in Brain”,J. Biol. Chem.,273: 16535-16543 (1998).
Fetrow an et al., “New Programs for Protein Tertiary Structure Prediction”,Bio/Tech.,11: 479-484 (1993).
Fox et al., “Kinetic Mechanism and ATP-Binding Site Reactivity of p38γ MAP Kinase”,FEBS Lett.,461: 323-328 (1999).
Fox et al., “A Single Amino Acid Substitution Makes ERK2 Susceptible to Pyridinyl Imidazole Inhibitors of p38 MAP Kinase”,Prot. Sci.7: 2249-2255 (1998).
Friedmann et al., “Characterization of the Proto-Oncogene Pim-1: Kinase Activity and Substrate Recognition Sequence”,Arch. Biochem. Biophys.,298: 594-601 (1992).
Gillet et al., “SPROUT: A Program for Structure Generation”,J. Comp. Aid. Molec. Des.,7: 127-153 (1993).
Goodford, “A Computational Procedure for Determining Energetically Favorable Binding Sites on Biologically Important Macromolecules”,J. Med. Chem.,28: 849-857 (1985).
Goodsell et al., “Automated Docking of Substrates to Proteins by Simulated Annealing”,Proteins: Struct. Funct. Genet.,8: 195-202 (1990).
Greer, “Comparative Modeling of Homologous Proteins”,Methods Enzymol.,202: 239-252 (1991).
Gschwend et al., “Molecular Docking Towards Drug Discovery”,J. Mol. Recog.,9: 175-186 (1996).
Guex a et al., “SWISS-MODEL and the Swiss-PdbViewer: An Environment for Comparative Protein Modeling”,Electrophoresis,18:2714-2723 (1997).
Guida, “Software for Structure-Based Drug Design”,Curr. Opin. Struct. Biol.,4: 777-781 (1994).
Hanks et al., “The Protein Kinase Family: Conserved Features and Deduced Phylogeny of the Catalytic Domains”,Science,241: 42-52 (1988).
Hanks et al., “Protein Kinase Cataly
Hare Brian
Jacobs Marc
Swenson Lovorka
Doss Raymond M.
Haley Jr. James F.
Ropes & Gray LLP
Steadman David J
Vertex Pharmaceuticals Incorporated
LandOfFree
Crystal structure of human Pim-1 kinase protein complexes... does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Crystal structure of human Pim-1 kinase protein complexes..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Crystal structure of human Pim-1 kinase protein complexes... will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-4221431