Analysis of protein phosphorylation: methods and strategies for studying kinases and substrates

被引:71
作者
Peck, SC [1 ]
机构
[1] Univ Missouri, Columbia, MO 65211 USA
关键词
signal transduction; in vitro kinase assay; phosphoproteome; phosphorylation site analysis; phosphatase assay; mitogen-activated protein kinase;
D O I
10.1111/j.1365-313X.2005.02613.x
中图分类号
Q94 [植物学];
学科分类号
071001 ;
摘要
Protein phosphorylation is a highly conserved mechanism for regulating protein function, being found in all prokaryotes and eukaryotes examined. Phosphorylation can alter protein activity or subcellular localization, target proteins for degradation and effect dynamic changes in protein complexes. In many cases, different kinases may be involved in each of these processes for a single protein, allowing a large degree of combinatorial regulation at the post-translational level. Therefore, knowing which kinases are activated during a response and which proteins are substrates is integral to understanding the mechanistic regulation of a wide range of biological processes. In this paper, I will describe methods for monitoring kinase activity, investigating kinase-substrate specificity, examining phosphorylation in planta and the determination of phosphorylation sites in a protein. In addition, strategic considerations for experimental design and variables will be discussed.
引用
收藏
页码:512 / 522
页数:11
相关论文
共 38 条
[1]   MAP kinase signalling cascade in Arabidopsis innate immunity [J].
Asai, T ;
Tena, G ;
Plotnikova, J ;
Willmann, MR ;
Chiu, WL ;
Gomez-Gomez, L ;
Boller, T ;
Ausubel, FM ;
Sheen, J .
NATURE, 2002, 415 (6875) :977-983
[2]   Large-scale characterization of HeLa cell nuclear phosphoproteins [J].
Beausoleil, SA ;
Jedrychowski, M ;
Schwartz, D ;
Elias, JE ;
Villén, J ;
Li, JX ;
Cohn, MA ;
Cantley, LC ;
Gygi, SP .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (33) :12130-12135
[3]   Identifying protein kinase substrates:: hunting for the organ-grinder's monkeys [J].
Berwick, DC ;
Tavaré, JM .
TRENDS IN BIOCHEMICAL SCIENCES, 2004, 29 (05) :227-232
[4]   Calcium signaling through protein kinases. The Arabidopsis calcium-dependent protein kinase gene family [J].
Cheng, SH ;
Willmann, MR ;
Chen, HC ;
Sheen, J .
PLANT PHYSIOLOGY, 2002, 129 (02) :469-485
[5]   PKS1, a substrate phosphorylated by phytochrome that modulates light signaling in Arabidopsis [J].
Fankhauser, C ;
Yeh, KC ;
Lagarias, JC ;
Zhang, H ;
Elich, TD ;
Chory, J .
SCIENCE, 1999, 284 (5419) :1539-1541
[6]   Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae [J].
Ficarro, SB ;
McCleland, ML ;
Stukenberg, PT ;
Burke, DJ ;
Ross, MM ;
Shabanowitz, J ;
Hunt, DF ;
White, FM .
NATURE BIOTECHNOLOGY, 2002, 20 (03) :301-305
[7]   MNK1, a new MAP kinase-activated protein kinase, isolated by a novel expression screening method for identifying protein kinase substrates [J].
Fukunaga, R ;
Hunter, T .
EMBO JOURNAL, 1997, 16 (08) :1921-1933
[8]   Identification of casein kinase I substrates by in vitro expression cloning screening [J].
Gao, ZH ;
Metherall, J ;
Virshup, DM .
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 2000, 268 (02) :562-566
[9]   A mass spectrometry-based proteomic approach for identification of serine/threonine-phosphorylated proteins by enrichment with phospho-specific antibodies - Identification of a novel protein, Frigg, as a protein kinase A substrate [J].
Gronborg, M ;
Kristiansen, TZ ;
Stensballe, A ;
Andersen, JS ;
Ohara, O ;
Mann, M ;
Jensen, ON ;
Pandey, A .
MOLECULAR & CELLULAR PROTEOMICS, 2002, 1 (07) :517-527
[10]   Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway [J].
Gruhler, A ;
Olsen, JV ;
Mohammed, S ;
Mortensen, P ;
Færgeman, NJ ;
Mann, M ;
Jensen, ON .
MOLECULAR & CELLULAR PROTEOMICS, 2005, 4 (03) :310-327