Corrigendum: CAF-1-induced oligomerization of histones H3/H4 and mutually exclusive interactions with Asf1 guide H3/H4 transitions among histone chaperones and DNA (Nucleic Acids Research (2012) 40: 22 (11229-11239) DOI: 10.1093/nar/gks906);CAF-1-induced oligomerization of histones H3/H4 and mutually exclusive interactions with Asf1 guide H3/H4 transitions among histone chaperones and DNA

Nucleic Acids Research

Volumn 40, Issue 22, 2012, Pages 11229-11239

  Liu, Wallace H ^a   Roemer, Sarah C ^a   Port, Alex M ^a   Churchill, Mair E A ^a  

^a UNIVERSITY OF COLORADO SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMATIN ASSEMBLY FACTOR 1; DIMER; DNA; HISTONE H3; HISTONE H4; TETRAMER; VANILLOID RECEPTOR 6;

ANIMAL CELL; ARTICLE; BINDING AFFINITY; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; DIMERIZATION; FLUORESCENCE RESONANCE ENERGY TRANSFER; GEL MOBILITY SHIFT ASSAY; NONHUMAN; OLIGOMERIZATION; PRIORITY JOURNAL; PROTEIN ASSEMBLY; PROTEIN CROSS LINKING; PROTEIN DNA INTERACTION; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; PROTEIN STABILITY; PROTEIN TRANSPORT; STRUCTURE ACTIVITY RELATION;

EID: 84871212864     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkx729     Document Type: Erratum

References (52)

1. Kornberg, R. D. and Thomas, J. O. (1974) Chromatin structure; oligomers of the histones. Science, 184, 865-868.
2. Jorcano, J. L. and Ruiz-Carrillo, A. (1979) H3. H4 tetramer directs DNA and core histone octamer assembly in the nucleosome core particle. Biochemistry, 18, 768-774.
3. Luger, K., Mader, A. W., Richmond, R. K., Sargent, D. F. and Richmond, T. J. (1997) Crystal structure of the nucleosome core particle at 2. 8 A resolution. Nature, 389, 251-260.
4. Zlatanova, J., Bishop, T. C., Victor, J. M., Jackson, V. and van Holde, K. (2009) The nucleosome family: dynamic and growing. Structure, 17, 160-171.
5. Ransom, M., Dennehey, B. K. and Tyler, J. K. (2010) Chaperoning histones during DNA replication and repair. Cell, 140, 183-195.
6. Clapier, C. R. and Cairns, B. R. (2009) The biology of chromatin remodeling complexes. Annu. Rev. Biochem., 78, 273-304.
7. Li, B., Carey, M. and Workman, J. L. (2007) The role of chromatin during transcription. Cell, 128, 707-719.
8. Das, C., Tyler, J. K. and Churchill, M. E. A. (2010) The histone shuffle: histone chaperones in an energetic dance. Trends Biochem. Sci., 35, 476-489.
9. Hondele, M. and Ladurner, A. G. (2011) The chaperone-histone partnership: for the greater good of histone traffic and chromatin plasticity. Curr. Opin. Struct. Biol., 21, 698-708.
10. Campos, E. I., Fillingham, J., Li, G., Zheng, H., Voigt, P., Kuo, W. H., Seepany, H., Gao, Z., Day, L. A., Greenblatt, J. F. et al. (2010) The program for processing newly synthesized histones H3. 1 and H4. Nat. Struct. Mol. Biol., 17, 1343-1351.
11. Tagami, H., Ray-Gallet, D., Almouzni, G. and Nakatani, Y. (2004) Histone H3. 1 and H3. 3 complexes mediate nucleosome assembly pathways dependent or independent of DNA synthesis. Cell, 116, 51-61.
12. Groth, A., Ray-Gallet, D., Quivy, J. P., Lukas, J., Bartek, J. and Almouzni, G. (2005) Human Asf1 regulates the flow of S phase histones during replicational stress. Mol. Cell, 17, 301-311.
13. Liu, W. H. and Churchill, M. E. A. (2012) Histone transfer among chaperones. Biochem. Soc. Trans., 40, 357-363.
14. Xu, M., Long, C., Chen, X., Huang, C., Chen, S. and Zhu, B. (2010) Partitioning of histone H3-H4 tetramers during DNA replication-dependent chromatin assembly. Science, 328, 94-98.
15. English, C. M., Maluf, N. K., Tripet, B., Churchill, M. E. and Tyler, J. K. (2005) ASF1 binds to a heterodimer of histones H3 and H4: a two-step mechanism for the assembly of the H3-H4 heterotetramer on DNA. Biochemistry, 44, 13673-13682.
16. English, C. M., Adkins, M. W., Carson, J. J., Churchill, M. E. and Tyler, J. K. (2006) Structural basis for the histone chaperone activity of Asf1. Cell, 127, 495-508.
17. Natsume, R., Eitoku, M., Akai, Y., Sano, N., Horikoshi, M. and Senda, T. (2007) Structure and function of the histone chaperone CIA/ASF1 complexed with histones H3 and H4. Nature, 446, 338-341.
18. Donham, D. C. I., Scorgie, J. K. and Churchill, M. E. A. (2011) The activity of the histone chaperone yeast Asf1 in the assembly and disassembly of histone H3/H4-DNA complexes. Nucleic Acids Res., 39, 5449-5458.
19. Annunziato, A. T. (2012) Assembling chromatin: the long and winding road. Biochim. Biophys. Acta, 1819, 196-210.
20. Shibahara, K. and Stillman, B. (1999) Replication-dependent marking of DNA by PCNA facilitates CAF-1-coupled inheritance of chromatin. Cell, 96, 575-585.
21. Bowman, A., Ward, R., Wiechens, N., Singh, V., El-Mkami, H., Norman, D. G. and Owen-Hughes, T. (2011) The histone chaperones Nap1 and Vps75 bind histones H3 and H4 in a tetrameric conformation. Mol. Cell, 41, 398-408.
22. Malay, A. D., Umehara, T., Matsubara-Malay, K., Padmanabhan, B. and Yokoyama, S. (2008) Crystal structures of fission yeast histone chaperone Asf1 complexed with the Hip1 B-domain or the Cac2 C terminus. J. Biol. Chem., 283, 14022-14031.
23. Tang, Y., Poustovoitov, M. V., Zhao, K., Garfinkel, M., Canutescu, A., Dunbrack, R., Adams, P. D. and Marmorstein, R. (2006) Structure of a human ASF1a-HIRA complex and insights into specificity of histone chaperone complex assembly. Nat. Struct. Mol. Biol., 13, 921-929.
24. Jiao, Y., Seeger, K., Lautrette, A., Gaubert, A., Mousson, F., Guerois, R., Mann, C. and Ochsenbein, F. (2012) Surprising complexity of the Asf1 histone chaperone-Rad53 kinase interaction. Proc. Natl Acad. Sci. USA, 109, 2866-2871.
25. Tamburini, B. A., Carson, J. J., Linger, J. G. and Tyler, J. K. (2006) Dominant mutants of the Saccharomyces cerevisiae ASF1 histone chaperone bypass the need for CAF-1 in transcriptional silencing by altering histone and Sir protein recruitment. Genetics, 173, 599-610.
26. Nowak, A. J., Alfieri, C., Stirnimann, C. U., Rybin, V., Baudin, F., Ly-Hartig, N., Lindner, D. and Muller, C. W. (2011) Chromatin-modifying complex component Nurf55/p55 associates with histones H3 and H4 and polycomb repressive complex 2 subunit Su(z)12 through partially overlapping binding sites. J. Biol. Chem., 286, 23388-23396.
27. Schmitges, F. W., Prusty, A. B., Faty, M., Stutzer, A., Lingaraju, G. M., Aiwazian, J., Sack, R., Hess, D., Li, L., Zhou, S. et al. (2011) Histone methylation by PRC2 is inhibited by active chromatin marks. Mol. Cell, 42, 330-341.
28. Song, J. J., Garlick, J. D. and Kingston, R. E. (2008) Structural basis of histone H4 recognition by p55. Genes Dev., 22, 1313-1318.
29. Scorgie, J. K., Donham, D. C. I. and Churchill, M. E. A. (2012) Analysis of histone chaperone antisilencing function 1 interactions. Methods Enzymol, 512, 223-241.
30. Park, Y. J., Dyer, P. N., Tremethick, D. J. and Luger, K. (2004) A new fluorescence resonance energy transfer approach demonstrates that the histone variant H2AZ stabilizes the histone octamer within the nucleosome. J. Biol. Chem., 279, 24274-24282.
31. Li, Q., Zhou, H., Wurtele, H., Davies, B., Horazdovsky, B., Verreault, A. and Zhang, Z. (2008) Acetylation of histone H3 lysine 56 regulates replication-coupled nucleosome assembly. Cell, 134, 244-255.
32. Krawitz, D. C., Kama, T. and Kaufman, P. D. (2002) Chromatin assembly factor I mutants defective for PCNA binding require Asf1/Hir proteins for silencing. Mol. Cell Biol., 22, 614-625.
33. Quivy, J. P., Grandi, P. and Almouzni, G. (2001) Dimerization of the largest subunit of chromatin assembly factor 1: importance in vitro and during Xenopus early development. EMBO J., 20, 2015-2027.
34. Baxevanis, A. D., Godfrey, J. E. and Moudrianakis, E. N. (1991) Associative behavior of the histone (H3-H4)2 tetramer: dependence on ionic environment. Biochemistry, 30, 8817-8823.
35. Dyer, P. N., Edayathumangalam, R. S., White, C. L., Bao, Y., Chakravarthy, S., Muthurajan, U. M. and Luger, K. (2004) Reconstitution of nucleosome core particles from recombinant histones and DNA. Methods Enzymol., 375, 23-44.
36. Banks, D. D. and Gloss, L. M. (2003) Equilibrium folding of the core histones: the H3-H4 tetramer is less stable than the H2A-H2B dimer. Biochemistry, 42, 6827-6839.
37. Mousson, F., Lautrette, A., Thuret, J. Y., Agez, M., Courbeyrette, R., Amigues, B., Becker, E., Neumann, J. M., Guerois, R., Mann, C. et al. (2005) Structural basis for the interaction of Asf1 with histone H3 and its functional implications. Proc. Natl Acad. Sci. USA, 102, 5975-5980.
38. Lowary, P. T. and Widom, J. (1998) New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning. J. Mol. Biol., 276, 19-42.
39. Banks, D. D. and Gloss, L. M. (2004) Folding mechanism of the (H3-H4)2 histone tetramer of the core nucleosome. Protein Sci., 13, 1304-1316.
40. Chavez, M. S., Scorgie, J. K., Dennehey, B. K., Noone, S. M., Tyler, J. K. and Churchill, M. E. A. (2012) The conformational flexibility of the C-terminus of histone H4 promotes histone octamer and nucleosome stability and yeast viability. Epigenet. Chromatin, 5, 5.
41. Daganzo, S. M., Erzberger, J. P., Lam, W. M., Skordalakes, E., Zhang, R., Franco, A. A., Brill, S. J., Adams, P. D., Berger, J. M. and Kaufman, P. D. (2003) Structure and function of the conserved core of histone deposition protein Asf1. Curr. Biol., 13, 2148-2158.
42. Tyler, J. K., Collins, K. A., Prasad-Sinha, J., Amiott, E., Bulger, M., Harte, P. J., Kobayashi, R. and Kadonaga, J. T. (2001) Interaction between the Drosophila CAF-1 and ASF1 chromatin assembly factors. Mol. Cell. Biol., 21, 6574-6584.
43. Hoek, M., Myers, M. P. and Stillman, B. (2011) An analysis of CAF-1-interacting proteins reveals dynamic and direct interactions with the KU complex and 14-3-3 proteins. J. Biol. Chem., 286, 10876-10887.
44. Fazly, A., Li, Q., Hu, Q., Mer, G., Horazdovsky, B. and Zhang, Z. (2012) Histone chaperone rtt106 promotes nucleosome formation using (h3-h4)2 tetramers. J. Biol. Chem., 287, 10753-10760.
45. Su, D., Hu, Q., Li, Q., Thompson, J. R., Cui, G., Fazly, A., Davies, B. A., Botuyan, M. V., Zhang, Z. and Mer, G. (2012) Structural basis for recognition of H3K56-acetylated histone H3-H4 by the chaperone Rtt106. Nature, 483, 104-107.
46. Kang, B., Pu, M., Hu, G., Wen, W., Dong, Z., Zhao, K., Stillman, B. and Zhang, Z. (2011) Phosphorylation of H4 Ser 47 promotes HIRA-mediated nucleosome assembly. Genes Dev., 25, 1359-1364.
47. Park, Y. J. and Luger, K. (2006) The structure of nucleosome assembly protein 1. Proc. Natl Acad. Sci. USA, 103, 1248-1253.
48. Jackson, V. (1988) Deposition of newly synthesized histones: hybrid nucleosomes are not tandemly arranged on daughter DNA strands. Biochemistry, 27, 2109-2120.
49. Pace, C. N. (1986) Determination and analysis of urea and guanidine hydrochloride denaturation curves. Methods Enzymol., 131, 266-280.
50. Santoro, M. M. and Bolen, D. W. (1988) Unfolding free energy changes determined by the linear extrapolation method. 1. Unfolding of phenylmethanesulfonyl alpha-chymotrypsin using different denaturants. Biochemistry, 27, 8063-8068.
51. Swillens, S. (1995) Interpretation of binding curves obtained with high receptor concentrations: practical aid for computer analysis. Mol. Pharmacol., 47, 1197-1203.
52. Antczak, A. J., Tsubota, T., Kaufman, P. D. and Berger, J. M. (2006) Structure of the yeast histone H3-ASF1 interaction: implications for chaperone mechanism, species-specific interactions, and epigenetics. BMC Struct. Biol., 6, 26.