Protein function studies: history, current status and future trends

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1 Chinese Bulletin of Life Sciences Vol. 19, No. 3 Jun., (2007) ( ) Q51A Protein function studies: history, current status and future trends MA Jing, GE Xi, CHANG Zengyi * (Protein Science Center, College of Life Sciences, Peking University, Beijing , China ) Abstract: Protein participates in almost all the life processes, including inheritance, development, reproduction, stress response, energy and material metabolisms etc. Unveiling the biological functions of the thousands of proteins present in living organisms is one key aspect of protein studies, and will be one of the most Challenging issues in life sciences Reviewed here is the history, current status, and future trends of studies on protein function. It is wished that this review will help readers, especially those who are not involved in protein research, to better understand the importance of the Protein Research Plan formulated in the Mid-and Long-term Plan of Science and Technology Development in China ( ). Key words: protein; function; post-genome era 1878 ( ) 20 [1-3] 1938 (protein) [1-3] (2006CB910300) (1982 ) (1982 ) (1965 ) * changzy@pku. edu.cn

2 ( proteins) (1838 ) 20 ( ) (1902 ) (1931 ) 1875 (1864 ) [1] Sumner Northrop ( ) ( ) [2] (phenylketonuria PKU) (cystic fibrosis CF) [4] 2 20 DNA DNA ( ) [5] [6] [7] [8] [9] [10] [11] ( 1) DNA DNA

3 DNA [11] Panther( ) GO(Gene Ontology ) ( ) [2] [2] ( ) [12] DNA ( ) ( ) ( DNA RNA )

4 3 297 ( ) [13] DNA RNA ( DNA RNA ) () RNA ( ) ( ) [14] RNA (RNAi) [15] RNAi mrna ( searches/rnai_search) ( X- ) [16] 3.3 DNA [17-18] (1) [19] (2) (3) [20]

5 [21] [22] 4 ATP ADP Pi ATP [23] [24] ( ) ( ) () 5 ( ) ( ) 5.1 ( ) ( ) [25] DNA

6 3 299 ( ) [12] [26] [27] 5.2 [28-30] 6 Nature Science Cell PNAS DNA (Anastasia Ezemaduka) [1] Fruton J S. - [M].., 2005 [2] Tanford C, Reynolds J. Nature s robot-a history of proteins [M]. Oxford: Oxford University Press, 2001 [3]. [M]. :, 2003, [4] Cavazzana-Calvo M, Thrasher A, Mavilio F. The future of gene therapy-balancing the risks and benefits of clinical trials. Nature, 2004, 427: [5] Mathe C, Sagot M F, Schiex T, et al. Current methods of gene prediction,their strengths and weaknesses. Nucleic Acids Res, 2002, 30(19): [6] Blattner F R, Plunkett G 3rd, Bloch C A, et al. The complete genome sequence of Escherichia coli K-12. Science, 1997, 277(5331): [7] Wood V, Gwilliam R, Rajandream M A, et al. The genome sequence of Schizosaccharomyces pombe. Nature, 2002, 415 (6874): [8] The C. elegans Sequencing Consortium. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science, 1998, 282: [9] Adams M D, Celniker S E, Holt R A, et al. The genome sequence of Drosophila melanogaster. Science, 2000, 287: [10] Arabidopsis Genome Initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature,

7 , 408: [11] Venter J C, Adams M D, Myers E W, et al. The sequence of the human genome. Science, 2001, 291: [12] Vaynberg J, Qin J. Weak protein-protein interactions as probed by NMR spectroscopy. Trends Biotechnol, 2006, 24: [13] Piehler J. New methodologies for measuring protein interactions in vivo and in vitro. Cur Opin Struct Biol, 2005, 15: 4-14 [14] Travis J. Scoring a technical knockout in mice. Science, 1992, 256: [15] Fire A S, Xu M K, Montgomery S A, et al. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature, 1998, 391: [16] Peters J L, Cnudde F, Gerats T. Forward genetics and mapbased cloning approaches. Trends Plant Sci, 2003, 8: [17] Abbott A. And now for the proteome. Nature, 2001, 409: 747 [18] Pierce J D, Fakhari M, Works K V, et al. Understanding proteomics. Nurs Health Sci, 2007, 9(1): [19] Wu C C, Yates J R 3rd. The application of mass spectrometry to membrane proteomics. Nat Biotechnol, 2003, 21: [20] Di Ventura B, Lemerle C, Michalodimitrakis K, et al. From in vivo to in silico biology and back. Nature, 2006, 443(7111): [21] Nariai N, Kolaczyk E D, Kasif S. Probabilistic protein function prediction from heterogeneous genome. PLoS ONE, 2007, 2: e337 [22] Casari G, Andrade M A, Bork P, et al. Challenging times for bioinformatics. Nature, 1995, 376: [23] Boyer P D. The ATP synthase a splendid molecular machine. Annu Rev Biochem, 1997, 66: [24] Kelley A M, Michalet X, Weiss S. Single-molecule spectroscopy comes of age. Science, 2001, 292: [25] Christopher M D. Protein folding and misfolding. Nature, 2003, 426: [26] Hartl F U. Molecular chaperones in cellular protein folding. Nature, 1996, 38: [27] Tanzi R E, Bertram L. Twenty years of the Alzheimer s disease amyloid hypothesis: a genetic perspective. Cell, 2005, 120: [28] Ciechanover A, Hod Y, Hershko A. A heat-stable polypeptide component of an ATP-dependent proteolytic system from reticulocytes. Biochem Biophys Res Commun, 1978, 81: [29] Jentsch S, Schlenker S. Selective protein degradation: a journeys end within the proteasome. Cell, 1995, 82: [30] Ciechanover A. The ubiquitin-proteasome pathway: on protein death and cell life. EMBO J, 1998, 17: (Avexa) ( ) (Avexa)

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