Chemical Strategies for Activity‐Based Proteomics

The assignment of molecular and cellular functions to the numerous protein products encoded by prokaryotic and eukaryotic genomes presents a major challenge for the field of proteomics. To address this problem, chemical approaches have been introduced that utilize small‐molecule probes to profile dynamics in enzyme activity in complex proteomes. These strategies for activity‐based protein profiling enable both the discovery and functional analysis of enzymes associated with human disease.

[1]  J. Widom,et al.  Structure of human methionine aminopeptidase-2 complexed with fumagillin. , 1998, Science.

[2]  S. Gygi,et al.  Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[3]  Anna E Speers,et al.  Activity-based protein profiling in vivo using a copper(i)-catalyzed azide-alkyne [3 + 2] cycloaddition. , 2003, Journal of the American Chemical Society.

[4]  P. Hajduk,et al.  NMR-based screening in drug discovery , 1999, Quarterly Reviews of Biophysics.

[5]  B. Weber,et al.  Genetic and hormonal risk factors in breast cancer. , 2000, Journal of the National Cancer Institute.

[6]  B. Cravatt,et al.  Activity-based protein profiling: the serine hydrolases. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[7]  Luke G Green,et al.  A stepwise huisgen cycloaddition process: copper(I)-catalyzed regioselective "ligation" of azides and terminal alkynes. , 2002, Angewandte Chemie.

[8]  A. Burlingame,et al.  Epoxide electrophiles as activity-dependent cysteine protease profiling and discovery tools. , 2000, Chemistry & biology.

[9]  Hsin‐Yi Wang,et al.  Design and synthesis of class-selective activity probes for protein tyrosine phosphatases. , 2002, Journal of proteome research.

[10]  Benjamin F. Cravatt,et al.  Chemical strategies for the global analysis of protein function. , 2000 .

[11]  W. Earnshaw,et al.  Activation of Multiple Interleukin-1β Converting Enzyme Homologues in Cytosol and Nuclei of HL-60 Cells during Etoposide-induced Apoptosis* , 1997, The Journal of Biological Chemistry.

[12]  A. Burlingame,et al.  Chemical Approaches for Functionally Probing the Proteome* , 2002, Molecular & Cellular Proteomics.

[13]  M. Molloy,et al.  Membrane proteins and proteomics: Un amour impossible? , 2000, Electrophoresis.

[14]  Nasreen S Jessani,et al.  Enzyme activity profiles of the secreted and membrane proteome that depict cancer cell invasiveness , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[15]  E. Lander,et al.  Deletion of cytosolic phospholipase A2 suppresses ApcMin-induced tumorigenesis , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[16]  N. Sládek.  Aldehyde dehydrogenase-mediated cellular relative insensitivity to the oxazaphosphorines. , 1999, Current pharmaceutical design.

[17]  D. Boger,et al.  Exceptionally potent inhibitors of fatty acid amide hydrolase: the enzyme responsible for degradation of endogenous oleamide and anandamide. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[18]  P. Hajduk,et al.  Discovering High-Affinity Ligands for Proteins: SAR by NMR , 1996, Science.

[19]  M. Untch,et al.  Her-2/neu and urokinase-type plasminogen activator and its inhibitor in breast cancer. , 2001, Clinical cancer research : an official journal of the American Association for Cancer Research.

[20]  M. Mann,et al.  Proteomics to study genes and genomes , 2000, Nature.

[21]  B. Cravatt,et al.  Fatty acid amide hydrolase: an emerging therapeutic target in the endocannabinoid system. , 2003, Current opinion in chemical biology.

[22]  B. Cravatt,et al.  Profiling serine hydrolase activities in complex proteomes. , 2001, Biochemistry.

[23]  J. Yates,et al.  Large-scale analysis of the yeast proteome by multidimensional protein identification technology , 2001, Nature Biotechnology.

[24]  F. Spyratos,et al.  Prognostic value of urokinase-type plasminogen activator (uPA) and plasminogen activator inhibitors PAI-1 and PAI-2 in breast carcinomas. , 1994, British Journal of Cancer.

[25]  B. Kemp,et al.  Active site-directed protein regulation , 1999, Nature.

[26]  Dale L Boger,et al.  Discovering potent and selective reversible inhibitors of enzymes in complex proteomes , 2003, Nature Biotechnology.

[27]  L. Lo,et al.  Design and synthesis of activity probes for glycosidases. , 2002, Organic letters.

[28]  M. Zvelebil,et al.  Wortmannin inactivates phosphoinositide 3-kinase by covalent modification of Lys-802, a residue involved in the phosphate transfer reaction , 1996, Molecular and cellular biology.

[29]  Yuri Lazebnik,et al.  Multiple species of CPP32 and Mch2 are the major active caspases present in apoptotic cells , 1997, The EMBO journal.

[30]  S. Gygi,et al.  Quantitative analysis of complex protein mixtures using isotope-coded affinity tags , 1999, Nature Biotechnology.

[31]  P. Griffin,et al.  Inactivation of interleukin-1 beta converting enzyme by peptide (acyloxy)methyl ketones. , 1994, Biochemistry.

[32]  N. Anderson,et al.  Proteome and proteomics: New technologies, new concepts, and new words , 1998, Electrophoresis.

[33]  Matthew Bogyo,et al.  A Role for the Protease Falcipain 1 in Host Cell Invasion by the Human Malaria Parasite , 2002, Science.

[34]  Wayne F. Patton,et al.  A comparison of silver stain and SYPRO Ruby Protein Gel Stain with respect to protein detection in two‐dimensional gels and identification by peptide mass profiling , 2000, Electrophoresis.

[35]  B. Cravatt,et al.  Trifunctional Chemical Probes for the Consolidated Detection and Identification of Enzyme Activities from Complex Proteomes*S , 2002, Molecular & Cellular Proteomics.

[36]  H. Ploegh,et al.  Chemistry-based functional proteomics reveals novel members of the deubiquitinating enzyme family. , 2002, Chemistry & biology.

[37]  D. Phillips,et al.  Mammary expression of xenobiotic metabolizing enzymes and their potential role in breast cancer. , 2000, Cancer research.

[38]  大房 健.  基礎講座 電気泳動(Electrophoresis) , 2005 .

[39]  M R Wilkins,et al.  Proteomics: Capacity versus utility , 2000, Electrophoresis.

[40]  B. Cravatt,et al.  Chemical Strategies for Functional Proteomics* , 2002, Molecular & Cellular Proteomics.

[41]  P. Schultz,et al.  Profiling protein function with small molecule microarrays , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[42]  Qian Wang,et al.  Bioconjugation by copper(I)-catalyzed azide-alkyne [3 + 2] cycloaddition. , 2003, Journal of the American Chemical Society.

[43]  B. Cravatt,et al.  Proteomic profiling of mechanistically distinct enzyme classes using a common chemotype , 2002, Nature Biotechnology.

[44]  D. Hochstrasser,et al.  The dynamic range of protein expression: A challenge for proteomic research , 2000, Electrophoresis.

[45]  B. Cravatt,et al.  Profiling the specific reactivity of the proteome with non-directed activity-based probes. , 2001, Chemistry & biology.

[46]  Andrew R. Leach,et al.  Molecular Complexity and Its Impact on the Probability of Finding Leads for Drug Discovery , 2001, J. Chem. Inf. Comput. Sci..

[47]  F. Young.  Biochemistry , 1955, The Indian Medical Gazette.

[48]  N. Berndt,et al.  In vivo and in vitro binding of microcystin to protein phosphatases 1 and 2A. , 1995, Biochemical and biophysical research communications.