Substrate and Functional Diversity of Lysine Acetylation Revealed by a Proteomics Survey

Molecular Cell

Volumn 23, Issue 4, 2006, Pages 607-618

  Kim, Sung Chan ^a   Sprung, Robert ^a   Chen, Yue ^a   Xu, Yingda ^a   Ball, Haydn ^a   Pei, Jimin ^a   Cheng, Tzuling ^b   Kho, Yoonjung ^a   Xiao, Hao ^c   Xiao, Lin ^d   Grishin, Nick V ^a   White, Michael ^b   Yang, Xiang Jiao ^d   Zhao, Yingming ^a  

^a UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^b UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^c ImmuneChem Pharmaceuticals Inc   (Canada)

^d MCGILL UNIVERSITY HEALTH CENTRE   (Canada)

Author keywords

PROTEINS

Indexed keywords

LYSINE; MITOCHONDRIAL PROTEIN;

ACETYLATION; ARTICLE; CELL NUCLEUS; CHROMATIN; CONTROLLED STUDY; ENZYME METABOLISM; FEMALE; HELA CELL; HUMAN; HUMAN CELL; LIVER MITOCHONDRION; MOUSE; NONHUMAN; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEOMICS;

ACETYLATION; AMINO ACID SEQUENCE; ANIMALS; CELLS, CULTURED; COMPUTATIONAL BIOLOGY; FIBROBLASTS; HELA CELLS; HUMANS; LYSINE; MASS SPECTROMETRY; MICE; MITOCHONDRIA; MOLECULAR SEQUENCE DATA; NIH 3T3 CELLS; PEPTIDES; PROTEINS; PROTEOMICS; SUBSTRATE SPECIFICITY;

EID: 33746992118     PISSN: 10972765     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.molcel.2006.06.026     Document Type: Article

References (40)

1. Anastasiadis P.Z., Moon S.Y., Thoreson M.A., Mariner D.J., Crawford H.C., Zheng Y., and Reynolds A.B. Inhibition of RhoA by p120 catenin. Nat. Cell Biol. 2 (2000) 637-644
2. Berger S.L. Histone modifications in transcriptional regulation. Curr. Opin. Genet. Dev. 12 (2002) 142-148
3. Blander G., and Guarente L. The Sir2 family of protein deacetylases. Annu. Rev. Biochem. 73 (2004) 417-435
4. Bordone L., and Guarente L. Calorie restriction, SIRT1 and metabolism: understanding longevity. Nat. Rev. Mol. Cell Biol. 6 (2005) 298-305
5. Bouras T., Fu M., Sauve A.A., Wang F., Quong A.A., Perkins N.D., Hay R.T., Gu W., and Pestell R.G. SIRT1 deacetylation and repression of p300 involves lysine residues 1020/1024 within the cell cycle regulatory domain 1. J. Biol. Chem. 280 (2005) 10264-10276
6. Brooks C.L., and Gu W. Ubiquitination, phosphorylation and acetylation: the molecular basis for p53 regulation. Curr. Opin. Cell Biol. 15 (2003) 164-171
7. Browner W.S., Kahn A.J., Ziv E., Reiner A.P., Oshima J., Cawthon R.M., Hsueh W.C., and Cummings S.R. The genetics of human longevity. Am. J. Med. 117 (2004) 851-860
8. Brunet A., Sweeney L.B., Sturgill J.F., Chua K.F., Greer P.L., Lin Y., Tran H., Ross S.E., Mostoslavsky R., Cohen H.Y., et al. Stress-dependent regulation of FOXO transcription factors by the SIRT1 deacetylase. Science 303 (2004) 2011-2015
9. Carrozza M.J., Utley R.T., Workman J.L., and Cote J. The diverse functions of histone acetyltransferase complexes. Trends Genet. 19 (2003) 321-329
10. Cohen T., and Yao T.P. AcK-knowledge reversible acetylation. Sci. STKE 2004 (2004) pe42
11. Cohen H.Y., Miller C., Bitterman K.J., Wall N.R., Hekking B., Kessler B., Howitz K.T., Gorospe M., de Cabo R., and Sinclair D.A. Calorie restriction promotes mammalian cell survival by inducing the SIRT1 deacetylase. Science 305 (2004) 390-392
12. Doyon Y., Cayrou C., Ullah M., Landry A.J., Cote V., Selleck W., Lane W.S., Tan S., Yang X.J., and Cote J. ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. Mol. Cell 21 (2006) 51-64
13. Egger G., Liang G., Aparicio A., and Jones P.A. Epigenetics in human disease and prospects for epigenetic therapy. Nature 429 (2004) 457-463
14. Etzkorn F.A., Chang Z.Y., Stolz L.A., and Walsh C.T. Cyclophilin residues that affect noncompetitive inhibition of the protein serine phosphatase activity of calcineurin by the cyclophilin.cyclosporin A complex. Biochemistry 33 (1994) 2380-2388
15. Gu W., and Roeder R.G. Activation of p53 sequence-specific DNA binding by acetylation of the p53 C-terminal domain. Cell 90 (1997) 595-606
16. Hamilton B., Dong Y., Shindo M., Liu W., Odell I., Ruvkun G., and Lee S.S. A systematic RNAi screen for longevity genes in C. elegans. Genes Dev. 19 (2005) 1544-1555
17. Hubbert C., Guardiola A., Shao R., Kawaguchi Y., Ito A., Nixon A., Yoshida M., Wang X.F., and Yao T.P. HDAC6 is a microtubule-associated deacetylase. Nature 417 (2002) 455-458
18. Iakoucheva L.M., Radivojac P., Brown C.J., O'Connor T.R., Sikes J.G., Obradovic Z., and Dunker A.K. The importance of intrinsic disorder for protein phosphorylation. Nucleic Acids Res. 32 (2004) 1037-1049
19. Kaiser C., and James S.R. Acetylation of insulin receptor substrate-1 is permissive for tyrosine phosphorylation. BMC Biol. 2 (2004) 23
20. Kelly W.K., Richon V.M., O'Connor O., Curley T., MacGregor-Curtelli B., Tong W., Klang M., Schwartz L., Richardson S., Rosa E., et al. Phase I clinical trial of histone deacetylase inhibitor: suberoylanilide hydroxamic acid administered intravenously. Clin. Cancer Res. 9 (2003) 3578-3588
21. Kim S., Chin K., Gray J.W., and Bishop J.M. A screen for genes that suppress loss of contact inhibition: identification of ING4 as a candidate tumor suppressor gene in human cancer. Proc. Natl. Acad. Sci. USA 101 (2004) 16251-16256
22. Kouzarides T. Acetylation: a regulatory modification to rival phosphorylation?. EMBO J. 19 (2000) 1176-1179
23. Kovacs J.J., Murphy P.J., Gaillard S., Zhao X., Wu J.T., Nicchitta C.V., Yoshida M., Toft D.O., Pratt W.B., and Yao T.P. HDAC6 regulates Hsp90 acetylation and chaperone-dependent activation of glucocorticoid receptor. Mol. Cell 18 (2005) 601-607
24. Margueron R., Trojer P., and Reinberg D. The key to development: interpreting the histone code?. Curr. Opin. Genet. Dev. 15 (2005) 163-176
25. Martin C., and Zhang Y. The diverse functions of histone lysine methylation. Nat. Rev. Mol. Cell Biol. 6 (2005) 838-849
26. McKinsey T.A., and Olson E.N. Cardiac histone acetylation-therapeutic opportunities abound. Trends Genet. 20 (2004) 206-213
27. Michishita E., Park J.Y., Burneskis J.M., Barrett J.C., and Horikawa I. Evolutionarily conserved and nonconserved cellular localizations and functions of human SIRT proteins. Mol. Biol. Cell 16 (2005) 4623-4635
28. Mootha V.K., Bunkenborg J., Olsen J.V., Hjerrild M., Wisniewski J.R., Stahl E., Bolouri M.S., Ray H.N., Sihag S., Kamal M., et al. Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Cell 115 (2003) 629-640
29. Morris A.J., and Tolan D.R. Lysine-146 of rabbit muscle aldolase is essential for cleavage and condensation of the C3-C4 bond of fructose 1,6-bis(phosphate). Biochemistry 33 (1994) 12291-12297
30. Pawson T., and Scott J.D. Protein phosphorylation in signaling-50 years and counting. Trends Biochem. Sci. 30 (2005) 286-290
31. Posern G., Miralles F., Guettler S., and Treisman R. Mutant actins that stabilise F-actin use distinct mechanisms to activate the SRF coactivator MAL. EMBO J. 23 (2004) 3973-3983
32. Schwer B., North B.J., Frye R.A., Ott M., and Verdin E. The human silent information regulator (Sir)2 homologue hSIRT3 is a mitochondrial nicotinamide adenine dinucleotide-dependent deacetylase. J. Cell Biol. 158 (2002) 647-657
33. Strahl B.D., and Allis C.D. The language of covalent histone modifications. Nature 403 (2000) 41-45
34. Taylor S.W., Fahy E., Zhang B., Glenn G.M., Warnock D.E., Wiley S., Murphy A.N., Gaucher S.P., Capaldi R.A., Gibson B.W., and Ghosh S.S. Characterization of the human heart mitochondrial proteome. Nat. Biotechnol. 21 (2003) 281-286
35. Thompson P.R., Wang D., Wang L., Fulco M., Pediconi N., Zhang D., An W., Ge Q., Roeder R.G., Wong J., et al. Regulation of the p300 HAT domain via a novel activation loop. Nat. Struct. Mol. Biol. 11 (2004) 308-315
36. Vaziri H., Dessain S.K., Ng Eaton E., Imai S.I., Frye R.A., Pandita T.K., Guarente L., and Weinberg R.A. hSIR2(SIRT1) functions as an NAD-dependent p53 deacetylase. Cell 107 (2001) 149-159
37. Vidali G., Gershey E.L., and Allfrey V.G. Chemical studies of histone acetylation. The distribution of epsilon-N-acetyllysine in calf thymus histones. J. Biol. Chem. 243 (1968) 6361-6366
38. Wang J., Morris A.J., Tolan D.R., and Pagliaro L. The molecular nature of the F-actin binding activity of aldolase revealed with site-directed mutants. J. Biol. Chem. 271 (1996) 6861-6865
39. Yang X.J. The diverse superfamily of lysine acetyltransferases and their roles in leukemia and other diseases. Nucleic Acids Res. 32 (2004) 959-976
40. Yang X.J. Lysine acetylation and the bromodomain: a new partnership for signaling. Bioessays 26 (2004) 1076-1087