XA Cul4 E3 ubiquitin ligase regulates histone hand-off during nucleosome assembly

Cell

Volumn 155, Issue 4, 2013, Pages 817-

  Han, Junhong ^a   Zhang, Hui ^a   Zhang, Honglian ^a   Wang, Zhiquan ^a   Zhou, Hui ^a   Zhang, Zhiguo ^a  

^a MAYO GRADUATE SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHAPERONE; HISTONE; HISTONE H3; HISTONE H4; LYSINE; PROTEIN ASF1; PROTEIN CUL4A; PROTEIN RTT101; UBIQUITIN PROTEIN LIGASE E3; UNCLASSIFIED DRUG;

ARTICLE; BINDING AFFINITY; COMPLEX FORMATION; CONTROLLED STUDY; DNA REPLICATION; EPIGENETICS; GENETIC STABILITY; GENETIC TRANSCRIPTION; HISTONE ACETYLATION; HUMAN; HUMAN CELL; MUTATION; NONHUMAN; NUCLEOSOME; PHENOTYPE; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; REGULATORY MECHANISM; UBIQUITINATION;

EID: 84887899338     PISSN: 00928674     EISSN: 10974172     Source Type: Journal    
DOI: 10.1016/j.cell.2013.10.014     Document Type: Article

References (57)

1. T. Abbas, U. Sivaprasad, K. Terai, V. Amador, M. Pagano, and A. Dutta PCNA-dependent regulation of p21 ubiquitylation and degradation via the CRL4Cdt2 ubiquitin ligase complex Genes Dev. 22 2008 2496 2506
2. T. Abbas, E. Shibata, J. Park, S. Jha, N. Karnani, and A. Dutta CRL4(Cdt2) regulates cell proliferation and histone gene expression by targeting PR-Set7/Set8 for degradation Mol. Cell 40 2010 9 21
3. R.J. Burgess, and Z. Zhang Histone chaperones in nucleosome assembly and human disease Nat. Struct. Mol. Biol. 20 2013 14 22
4. R.J. Burgess, H. Zhou, J. Han, and Z. Zhang A role for Gcn5 in replication-coupled nucleosome assembly Mol. Cell 37 2010 469 480
5. E.I. Campos, J. Fillingham, G. Li, H. Zheng, P. Voigt, W.H. Kuo, H. Seepany, Z. Gao, L.A. Day, J.F. Greenblatt, and D. Reinberg The program for processing newly synthesized histones H3.1 and H4 Nat. Struct. Mol. Biol. 17 2010 1343 1351
6. I. Celic, H. Masumoto, W.P. Griffith, P. Meluh, R.J. Cotter, J.D. Boeke, and A. Verreault The sirtuins hst3 and Hst4p preserve genome integrity by controlling histone h3 lysine 56 deacetylation Curr. Biol. 16 2006 1280 1289
7. C. Choudhary, C. Kumar, F. Gnad, M.L. Nielsen, M. Rehman, T.C. Walther, J.V. Olsen, and M. Mann Lysine acetylation targets protein complexes and co-regulates major cellular functions Science 325 2009 834 840
8. S.R. Collins, K.M. Miller, N.L. Maas, A. Roguev, J. Fillingham, C.S. Chu, M. Schuldiner, M. Gebbia, J. Recht, and M. Shales Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map Nature 446 2007 806 810
9. A. Corpet, L. De Koning, J. Toedling, A. Savignoni, F. Berger, C. Lemaître, R.J. O'Sullivan, J. Karlseder, E. Barillot, and B. Asselain Asf1b, the necessary Asf1 isoform for proliferation, is predictive of outcome in breast cancer EMBO J. 30 2011 480 493
10. D.C. Donham 2nd, J.K. Scorgie, and M.E. Churchill The activity of the histone chaperone yeast Asf1 in the assembly and disassembly of histone H3/H4-DNA complexes Nucleic Acids Res. 39 2011 5449 5458
11. P. Drané, K. Ouararhni, A. Depaux, M. Shuaib, and A. Hamiche The death-associated protein DAXX is a novel histone chaperone involved in the replication-independent deposition of H3.3 Genes Dev. 24 2010 1253 1265
12. R. Driscoll, A. Hudson, and S.P. Jackson Yeast Rtt109 promotes genome stability by acetylating histone H3 on lysine 56 Science 315 2007 649 652
13. C.M. English, M.W. Adkins, J.J. Carson, M.E. Churchill, and J.K. Tyler Structural basis for the histone chaperone activity of Asf1 Cell 127 2006 495 508
14. A.D. Goldberg, L.A. Banaszynski, K.M. Noh, P.W. Lewis, S.J. Elsaesser, S. Stadler, S. Dewell, M. Law, X. Guo, and X. Li Distinct factors control histone variant H3.3 localization at specific genomic regions Cell 140 2010 678 691
15. A. Groth, D. Ray-Gallet, J.P. Quivy, J. Lukas, J. Bartek, and G. Almouzni Human Asf1 regulates the flow of S phase histones during replicational stress Mol. Cell 17 2005 301 311
16. A. Groth, W. Rocha, A. Verreault, and G. Almouzni Chromatin challenges during DNA replication and repair Cell 128 2007 721 733
17. J. Han, H. Zhou, B. Horazdovsky, K. Zhang, R.M. Xu, and Z. Zhang Rtt109 acetylates histone H3 lysine 56 and functions in DNA replication Science 315 2007 653 655
18. J. Han, Q. Li, L. McCullough, C. Kettelkamp, T. Formosa, and Z. Zhang Ubiquitylation of FACT by the cullin-E3 ligase Rtt101 connects FACT to DNA replication Genes Dev. 24 2010 1485 1490
19. C.G. Havens, and J.C. Walter Mechanism of CRL4(Cdt2), a PCNA-dependent E3 ubiquitin ligase Genes Dev. 25 2011 1568 1582
20. C.M. Heaphy, R.F. de Wilde, Y. Jiao, A.P. Klein, B.H. Edil, C. Shi, C. Bettegowda, F.J. Rodriguez, C.G. Eberhart, and S. Hebbar Altered telomeres in tumors with ATRX and DAXX mutations Science 333 2011 425
21. F. Hu, A.A. Alcasabas, and S.J. Elledge Asf1 links Rad53 to control of chromatin assembly Genes Dev. 15 2001 1061 1066
22. S. Jackson, and Y. Xiong CRL4s: the CUL4-RING E3 ubiquitin ligases Trends Biochem. Sci. 34 2009 562 570
23. Y. Jiao, C. Shi, B.H. Edil, R.F. de Wilde, D.S. Klimstra, A. Maitra, R.D. Schulick, L.H. Tang, C.L. Wolfgang, and M.A. Choti DAXX/ATRX, MEN1, and mTOR pathway genes are frequently altered in pancreatic neuroendocrine tumors Science 331 2011 1199 1203
24. P.D. Kaufman, J.L. Cohen, and M.A. Osley Hir proteins are required for position-dependent gene silencing in Saccharomyces cerevisiae in the absence of chromatin assembly factor I Mol. Cell. Biol. 18 1998 4793 4806
25. W. Kim, E.J. Bennett, E.L. Huttlin, A. Guo, J. Li, A. Possemato, M.E. Sowa, R. Rad, J. Rush, and M.J. Comb Systematic and quantitative assessment of the ubiquitin-modified proteome Mol. Cell 44 2011 325 340
26. J. Lee, and P. Zhou DCAFs, the missing link of the CUL4-DDB1 ubiquitin ligase Mol. Cell 26 2007 775 780
27. J. Lee, and P. Zhou Cullins and cancer Genes Cancer 1 2010 690 699
28. J. Lee, and P. Zhou Pathogenic Role of the CRL4 Ubiquitin Ligase in Human Disease Front Oncol 2 2012 21
29. J.S. Lee, A. Shukla, J. Schneider, S.K. Swanson, M.P. Washburn, L. Florens, S.R. Bhaumik, and A. Shilatifard Histone crosstalk between H2B monoubiquitination and H3 methylation mediated by COMPASS Cell 131 2007 1084 1096
30. Q. Li, H. Zhou, H. Wurtele, B. Davies, B. Horazdovsky, A. Verreault, and Z. Zhang Acetylation of histone H3 lysine 56 regulates replication-coupled nucleosome assembly Cell 134 2008 244 255
31. M. Lisby, U.H. Mortensen, and R. Rothstein Colocalization of multiple DNA double-strand breaks at a single Rad52 repair centre Nat. Cell Biol. 5 2003 572 577
32. K. Luger Dynamic nucleosomes Chromosome Res. 14 2006 5 16
33. N.L. Maas, K.M. Miller, L.G. DeFazio, and D.P. Toczyski Cell cycle and checkpoint regulation of histone H3 K56 acetylation by Hst3 and Hst4 Mol. Cell 23 2006 109 119
34. T. Nakagawa, and Y. Xiong X-linked mental retardation gene CUL4B targets ubiquitylation of H3K4 methyltransferase component WDR5 and regulates neuronal gene expression Mol. Cell 43 2011 381 391
35. S. Nakano, B. Stillman, and H.R. Horvitz Replication-coupled chromatin assembly generates a neuronal bilateral asymmetry in C. elegans Cell 147 2011 1525 1536
36. M. Ransom, B.K. Dennehey, and J.K. Tyler Chaperoning histones during DNA replication and repair Cell 140 2010 183 195
37. D. Ray-Gallet, A. Woolfe, I. Vassias, C. Pellentz, N. Lacoste, A. Puri, D.C. Schultz, N.A. Pchelintsev, P.D. Adams, L.E. Jansen, and G. Almouzni Dynamics of histone H3 deposition in vivo reveal a nucleosome gap-filling mechanism for H3.3 to maintain chromatin integrity Mol. Cell 44 2011 928 941
38. A.C. Silva, X. Xu, H.S. Kim, J. Fillingham, T. Kislinger, T.A. Mennella, and M.C. Keogh The replication-independent histone H3-H4 chaperones HIR, ASF1, and RTT106 co-operate to maintain promoter fidelity J. Biol. Chem. 287 2012 1709 1718
39. D. Skowyra, K.L. Craig, M. Tyers, S.J. Elledge, and J.W. Harper F-box proteins are receptors that recruit phosphorylated substrates to the SCF ubiquitin-ligase complex Cell 91 1997 209 219
40. B. Stillman Chromatin assembly during SV40 DNA replication in vitro Cell 45 1986 555 565
41. D. Su, Q. Hu, Q. Li, J.R. Thompson, G. Cui, A. Fazly, B.A. Davies, M.V. Botuyan, Z. Zhang, and G. Mer Structural basis for recognition of H3K56-acetylated histone H3-H4 by the chaperone Rtt106 Nature 483 2012 104 107
42. T. Suganuma, and J.L. Workman Crosstalk among Histone Modifications Cell 135 2008 604 607
43. Z.W. Sun, and C.D. Allis Ubiquitination of histone H2B regulates H3 methylation and gene silencing in yeast Nature 418 2002 104 108
44. H. Tagami, D. Ray-Gallet, G. Almouzni, and Y. Nakatani Histone H3.1 and H3.3 complexes mediate nucleosome assembly pathways dependent or independent of DNA synthesis Cell 116 2004 51 61
45. Y. Tang, M.V. Poustovoitov, K. Zhao, M. Garfinkel, A. Canutescu, R. Dunbrack, P.D. Adams, and R. Marmorstein Structure of a human ASF1a-HIRA complex and insights into specificity of histone chaperone complex assembly Nat. Struct. Mol. Biol. 13 2006 921 929
46. K. Terai, T. Abbas, A.A. Jazaeri, and A. Dutta CRL4(Cdt2) E3 ubiquitin ligase monoubiquitinates PCNA to promote translesion DNA synthesis Mol. Cell 37 2010 143 149
47. J.A. Tercero, and J.F. Diffley Regulation of DNA replication fork progression through damaged DNA by the Mec1/Rad53 checkpoint Nature 412 2001 553 557
48. P. Tropberger, S. Pott, C. Keller, K. Kamieniarz-Gdula, M. Caron, F. Richter, G. Li, G. Mittler, E.T. Liu, and M. Bühler Regulation of transcription through acetylation of H3K122 on the lateral surface of the histone octamer Cell 152 2013 859 872
49. A. Verreault, P.D. Kaufman, R. Kobayashi, and B. Stillman Nucleosome assembly by a complex of CAF-1 and acetylated histones H3/H4 Cell 87 1996 95 104
50. H. Wang, L. Zhai, J. Xu, H.Y. Joo, S. Jackson, H. Erdjument-Bromage, P. Tempst, Y. Xiong, and Y. Zhang Histone H3 and H4 ubiquitylation by the CUL4-DDB-ROC1 ubiquitin ligase facilitates cellular response to DNA damage Mol. Cell 22 2006 383 394
51. D.D. Winkler, H. Zhou, M.A. Dar, Z. Zhang, and K. Luger Yeast CAF-1 assembles histone (H3-H4)2 tetramers prior to DNA deposition Nucleic Acids Res. 40 2012 10139 10149
52. I.W. Zaidi, G. Rabut, A. Poveda, H. Scheel, J. Malmström, H. Ulrich, K. Hofmann, P. Pasero, M. Peter, and B. Luke Rtt101 and Mms1 in budding yeast form a CUL4(DDB1)-like ubiquitin ligase that promotes replication through damaged DNA EMBO Rep. 9 2008 1034 1040
53. S. Zhao, W. Xu, W. Jiang, W. Yu, Y. Lin, T. Zhang, J. Yao, L. Zhou, Y. Zeng, and H. Li Regulation of cellular metabolism by protein lysine acetylation Science 327 2010 1000 1004
54. A. Belle, A. Tanay, L. Bitincka, R. Shamir, and E.K. O'Shea Quantification of protein half-lives in the budding yeast proteome Proc. Natl. Acad. Sci. USA 103 2006 13004 13009
55. K. Luger, T.J. Rechsteiner, and T.J. Richmond Preparation of nucleosome core particle from recombinant histones Methods Enzymol. 304 1999 3 19
56. S. Mimura, T. Yamaguchi, S. Ishii, E. Noro, T. Katsura, C. Obuse, and T. Kamura Cul8/Rtt101 forms a variety of protein complexes that regulate DNA damage response and transcriptional silencing J. Biol. Chem. 285 2010 9858 9867
57. A. Poveda, M. Pamblanco, S. Tafrov, V. Tordera, R. Sternglanz, and R. Sendra Hif1 is a component of yeast histone acetyltransferase B, a complex mainly localized in the nucleus J. Biol. Chem. 279 2004 16033 16043