Analysis of the mechanism of establishment of chromosomal functioning regions through nucleosomal structural changes

• Project/Area Number: 19370049
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Functional biochemistry
• Research Institution: The University of Tokyo
• Principal Investigator: HORIKOSHI Masami The University of Tokyo, 分子細胞生物学研究所, 准教授 (70242089)
• Project Period (FY): 2007 – 2008
• Project Status: Completed (Fiscal Year 2008)
• Budget Amount: ¥18,980,000 (Direct Cost: ¥14,600,000、Indirect Cost: ¥4,380,000); Fiscal Year 2008: ¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000); Fiscal Year 2007: ¥14,560,000 (Direct Cost: ¥11,200,000、Indirect Cost: ¥3,360,000)
• Keywords: 遺伝子の情報発現と複製 / クロマチン / 染色体 / 遺伝子サイレンシング / ヒストンシャペロン / ヒストン化学修飾

Research Abstract

真核細胞の遺伝子発現制御の特徴であるヌクレオソームを鋳型とした様々な制御機構に関して、ヒストンの化学修飾制御からヌクレオソーム構造変換制御に至る過程の仕組みを三次構造レベルで明らかにした上で、化学修飾に関してはスケールフリーネットワーク構造であることを示し、ヌクレオソーム構造変換制御に関してはヒストン点変異体解析を通して様々な素反応を機能的に解析した。

Research Products

• [Journal Article] Global analysis of mutual interaction surfaces of nucleosomes with comprehensive point mutants (2009)
  • Author(s): M.Sakamoto, S.Noguchi, S.Kawashima, Y.Okada, T.Enomoto, M.Seki & M.Horikoshi
  • Journal Title: Genes Cells (in press)
  • Peer Reviewed
• [Journal Article] Theoretical framework for the histone modification network : modifications in the unstructured histone tails form a robust scale-free network (2009)
  • Author(s): Y.Hayashi, T.Senda, N.Sano & M.Horikoshi
  • Journal Title: Genes Cells (in press)
  • Peer Reviewed
• [Journal Article] Theoretical framework for the histone modification network: modifications in the unstructured histone tails form a robust scale-free network (2009)
  • Author(s): Y.Hayashi, et al.
  • Journal Title: Genes Cells (in press,掲載確定)
  • Peer Reviewed
• [Journal Article] Crystal structure of Methanococcus jannaschii TATA-box-binding protein (2008)
  • Author(s): N.Adachi, M.Senda, R.Natsume, T.Senda & M.Horikoshi
  • Journal Title: Genes Cells. 13 Pages: 1127-1140
  • Peer Reviewed
• [Journal Article] Effect of leucine-to-methionine substitutions on the diffraction quality of histone chaperone SET/ TAF-Iβ/INHAT crystals (2008)
  • Author(s): M.Senda, S.Muto, M.Horikoshi & T.Senda
  • Journal Title: Acta Crystallogr.F. 64 Pages: 960-965
  • Peer Reviewed
• [Journal Article] Novel structural and functional mode of a knot essential for RNA binding activity of the Esa1 presumed chromodomain (2008)
  • Author(s): H.Shimojo, N.Sano, Y.Moriwaki, M.Okuda, M.Horikoshi & Y.Nishimura
  • Journal Title: J. Mol. Biol. 378 Pages: 987-1001
  • Peer Reviewed
• [Journal Article] Promoter region-specific histone incorporation by the novel histone chaperone ANP32B and DNA-binding factor (2008)
  • Author(s): Y.Munemasa, T.Suzuki, K.Aizawa, S.Miyamoto, Y.Imai, T.Matsumura, M.Horikoshi & R.Nagai
  • Journal Title: Mol. Cell. Biol. 28 Pages: 1171-1181
  • Peer Reviewed
• [Journal Article] Hisone chaperones : 30 years from isolation to elucidation of the mechanisms of nucleosome assembly and disassembly (2008)
  • Author(s): M.Eitoku, L.Sato, T.Senda & M.Horikoshi
  • Journal Title: Cell. Mol. Life Sci. 65 Pages: 414-444
  • Peer Reviewed
• [Journal Article] Crystal structure of Methanococcus jannaschii TATA-box-binding protein (2008)
  • Author(s): N.Adachi, et al.
  • Journal Title: Genes Cells 13 Pages: 1127-1140
  • Peer Reviewed
• [Journal Article] Effect of leucine-to-methionine substitutions on the diffraction quality of histone chaperone SET/ TAF-I β /INHAT crystals (2008)
  • Author(s): M.Senda, et al.
  • Journal Title: Acta Crystallogr.F 64 Pages: 960-965
  • Peer Reviewed
• [Journal Article] Novel structural and functional mode of a knot essential for RNA binding activity of the Esal presumed chromodomain (2008)
  • Author(s): H.Shimojo, et al.
  • Journal Title: J.Mol.Biol 378 Pages: 987-1001
  • Peer Reviewed
• [Journal Article] Promoter region-specific histone incorporation by the novel histone chaperone ANP32B and DNA-binding factor KLF5 (2008)
  • Author(s): Y.Munemasa, et al.
  • Journal Title: Mol.Cell.Biol. 28 Pages: 1171-1181
  • Peer Reviewed
• [Journal Article] Histone chaperones: 30 years from isolation to elucidation of the mechanisms of nucleosome assembly and disassembly (2008)
  • Author(s): M.Eitoku, et al.
  • Journal Title: Cell.Mol.Life Sci. 65 Pages: 414-444
  • Peer Reviewed
• [Journal Article] Novel structural and functional mode of a knot essential for RNA binding activity of the Esalpresumed chromodomain (2008)
  • Author(s): S. Hideaki, et. al.
  • Journal Title: J. Mol. Biol (in press)
  • Peer Reviewed
• [Journal Article] Promoter region-specific histone incorporation by the novel histone chaperone ANP32B and DNA-binding factor (2008)
  • Author(s): Y. Munemasa, et. al.
  • Journal Title: Mol. Cell. Biol 28 Pages: 1171-1181
  • Peer Reviewed
• [Journal Article] Hisone chaperones: 30 years from isolation to elucidation of the mechanisms of nucleosome assembly and disassembly (2008)
  • Author(s): M. Eitoku, et. al.
  • Journal Title: Cell. Mol. Life Sci 65 Pages: 414-444
  • Peer Reviewed
• [Journal Article] Structural basis for the recognition between the regulatory particles Nas6 and Rpt3 of the yeast 26S proteasome (2007)
  • Author(s): 8. Y.Nakamura, T.Umehara, A.Tanaka, M.Horikoshi, B.Padmanabhan & S.Yokoyama
  • Journal Title: Biochem. Biophys. Res. Commun. 359 Pages: 503-509
• [Journal Article] Functional interaction between the transcription factor Kruppel-like factor 5 and poly(ADP-ribose) polymerase-1 (2007)
  • Author(s): T.Suzuki, T.Nishi, T.Nagino, K.Sasaki, K.Aizawa, N.Kada, D.Sawaki, Y.Munemasa, T.Matsumura, S.Muto, M.Sata, K.Miyagawa, M.Horikoshi & R.Nagai
  • Journal Title: J.Biol.Chem. 282 Pages: 9895-9901
  • Peer Reviewed
• [Journal Article] Structure and function of the histone chaperone CIA/ASF1 complexed with hisontes H3 and H4 (2007)
  • Author(s): R.Natsume, M.Eitoku, Y.Akai, N.Sano, M.Horikoshi & T.Senda
  • Journal Title: Nature 446 Pages: 338-341
  • Peer Reviewed
• [Journal Article] between the structure of SET/TAF-Iβ/INHAT and its histone chaperone activity (2007)
  • Author(s): S.Muto, M.Senda, Y.Akai, L.Sato, T.Suzuki, R.Nagai, T.Senda & M.Horikoshi
  • Journal Title: Proc. Natl. Acad.Sci. U. S. A. 104 Pages: 4285-4290
  • Peer Reviewed
• [Journal Article] Structure of the Oncoprotein Gankyrin in Complex with S6 ATPase of the 26S Proteasome (2007)
  • Author(s): Y.Nakamura, K.Nakano, T.Umehara, M.Kimura, Y.Hayashizaki, A.Tanaka, M.Horikoshi, B.Padmanabhan & S.Yokoyama
  • Journal Title: Structure 15 Pages: 179-189
  • Peer Reviewed
• [Journal Article] structure of the human Brd2 bromodomain : Insights into dimerization and recognition of acetylated histone H4 (2007)
  • Author(s): Y.Nakamura, T.Umehara, K.Nakano, MK.Jang, M.Shirouzu, S.Morita, H.Uda-Tochio, H.Hamana, T.Terada, N.Adachi, T.Matsumoto, A.Tanaka, M.Horikoshi, K.Ozato, B.Padmanabhan, & S.Yokoyama. Crystal
  • Journal Title: J.Biol.Chem. 282 Pages: 4193-4201
  • Peer Reviewed
• [Journal Article] Structural polymorphism of chromodomains in Chd1 (2007)
  • Author(s): M.Okuda, M.Horikoshi & Y.Nishimura
  • Journal Title: J.Mol.Biol. 365 Pages: 1047-1062
  • Peer Reviewed
• [Journal Article] Purification, crystallization and preliminary X-ray diffraction analysis of the non-ATPase subunit Nas6 in complex with the ATPase subunit Rpt3 of the 26S proteasome from Saccharomyces cerevisiae (2007)
  • Author(s): Y.Nakamura, T.Umehara, A.Tanaka, M.Horikoshi, B. Padmanabhan & S.Yokoyama
  • Journal Title: Acta Crystallogr. F 63 Pages: 190-192
  • Peer Reviewed
• [Journal Article] Global analysis of functional surfaces of core histones with comprehensive point mutants (2007)
  • Author(s): K.Matsubara, N.Sano, T.Umehara & M.Horikoshi
  • Journal Title: Genes Cells 12 Pages: 13-33
  • Peer Reviewed
• [Journal Article] Gene selectors consisting of DNA-binding proteins, histones, and histone-binding proteins regulate the three major stages of gene expression (2007)
  • Author(s): S.Muto and M.Horikoshi
  • Journal Title: Nuclear Dynamics : Molecular biology and visualization of the nucleus Pages: 145-175
  • Peer Reviewed
• [Journal Article] Structural basis for the recognition between the regulatory particles Nas6 and Rpt3 of the yeast 26S proteasome (2007)
  • Author(s): Y. Nakamura, et. al.
  • Journal Title: Biochem. Biophys. Res. Commun 359 Pages: 503-509
  • Peer Reviewed
• [Journal Article] Functional interaction between the transcription factor Kruppel-like factor 5 and poly(ADP-ribose) polymerase-1 (2007)
  • Author(s): T. Suzuki, et. al.
  • Journal Title: J. Biol. Chem 282 Pages: 9895-9901
  • Peer Reviewed
• [Journal Article] Structure and function of the histone chaperone CIA/ASF1 complexed with hisontes H3 and H4 (2007)
  • Author(s): R. Natsume, et. al.
  • Journal Title: Nature 446 Pages: 338-341
  • Peer Reviewed
• [Journal Article] Relationship between the structure of SET/TAF-Iβ/INHAT and its histone chaperone activity (2007)
  • Author(s): S. Muto, et. al.
  • Journal Title: Proc. Natl. Acad. Sci. U. S. A 104 Pages: 4285-4290
  • Peer Reviewed
• [Journal Article] Strucyure of the Oncoprotein Gankyrin in Complex with S6 ATPase of the 26S Proteasome (2007)
  • Author(s): Y. Nakamura, et. al.
  • Journal Title: Structure 15 Pages: 179-189
  • Peer Reviewed
• [Journal Article] Crystal structure of the human Brd2 bromodomain:Insights into dimerization and recognition of acetylated (2007)
  • Author(s): Y. Nakamura, et. al.
  • Journal Title: J. Biol. Chem 282 Pages: 4193-4201
  • Peer Reviewed
• [Journal Article] Structural polymorphism of chromodomains in Chd1 (2007)
  • Author(s): M. Okuda, et. al.
  • Journal Title: J. Mol. Biol 365 Pages: 1047-1062
  • Peer Reviewed
• [Journal Article] Purification, crystallization and prelimilary X-ray diffraction analysis of the non-ATPase subunit Nas6 in complex with the ATPase subunit Rpt3 of the 26S proteasome from Saccharomyces cerevisiae (2007)
  • Author(s): Y. Nakamura, et. al.
  • Journal Title: Acta Crystallogr. F 63 Pages: 190-192
  • Peer Reviewed
• [Journal Article] Global analysis of functional surfaces of core histones with comprehensive point mutants (2007)
  • Author(s): K. Matsubara, et. al.
  • Journal Title: Genes Cells 12 Pages: 13-33
  • Peer Reviewed
• [Journal Article] Gene selectors consisting of DNA-binding proteins, histones, and histone-binding proteins regulate the three major stages of gene expression (2007)
  • Author(s): S. Mutoand M. Horikoshi
  • Journal Title: Nuclear Dynamics:Molecular blology and visualization of the nucleus Pages: 145-175
  • Peer Reviewed
• [Presentation] ヒストンコード仮説の問題点と克服 (2009)
  • Author(s): 堀越正美
  • Organizer: 第9回日本蛋白質科学会年会
  • Place of Presentation: 熊本
  • Year and Date: 2009-05-20
• [Presentation] Theoretical framework for the histone modification network : modifications in the unstructured histone tails form a robust scale-free network (2009)
  • Author(s): M. Horikoshi
  • Organizer: 2009 Global Biomarker Conference
  • Place of Presentation: Vancouver, BC, Canada
  • Year and Date: 2009-03-20
• [Presentation] Theoretical framework for the histone modification network: modifications in the unstructured histone tails form a robust scale-free network (2009)
  • Author(s): M.Horikoshi
  • Organizer: 2009 Global Biomarker Conference
  • Place of Presentation: Vancouver, BC, Canada
  • Year and Date: 2009-03-20
• [Presentation] From histone modification to nuclesome disassembly (2009)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia-Chromatin Dynamics and Higher Order Organization
  • Place of Presentation: Spokane, WC, USA
  • Year and Date: 2009-02-26
• [Presentation] From isolation of novel chromatin factors to proposal of models leading to novel principles and concepts (2008)
  • Author(s): M. Horikoshi
  • Organizer: International symposium on Nuclear Architecture and Chromatin Dynamics
  • Place of Presentation: Hyderabad, India
  • Year and Date: 2008-11-28
• [Presentation] Analysis of architecture of histone modification network (2008)
  • Author(s): M. Horikoshi
  • Organizer: World Microarray Congress2008
  • Place of Presentation: Vancouver, BC, Canada
  • Year and Date: 2008-06-29
• [Presentation] Analysis of architecture of histone modification network (2008)
  • Author(s): M.Horikoshi
  • Organizer: World Microarray Congress 2008
  • Place of Presentation: Vancouver, BC, Canada
  • Year and Date: 2008-06-29
• [Presentation] From histone modification to nuclesome disassembly (2008)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia Molecular Basis for Chromatin Modifications and Epigenetic Phenomena
  • Place of Presentation: Denver, CO, USA
  • Year and Date: 2008-04-08
• [Presentation] From hitonr modification to nuclesome disassembly (2008)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia-Molecular Basis for Chromatin Modifications and Epigenetic Phenomena
  • Place of Presentation: Denver,CO,USA
  • Year and Date: 2008-04-08
• [Presentation] From histone modification to nuclesome disassembly (2008)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia-Regulatory Mechanisms in Eukaryotic Transcription
  • Place of Presentation: Denver, CO, USA
  • Year and Date: 2008-02-05
• [Presentation] From histone modification to nuclesome disassembly (2008)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia-Regulatory Mechanisms in Eukaryotic Transcription
  • Place of Presentation: Denver,CO,USA
  • Year and Date: 2008-02-05
• [Presentation] 半保存的ヌクレオソーム複製及びエピジェネティック情報伝達-ヒストンシャペロン単離からヌクレオソーム構造変換機構までの30年- (2007)
  • Author(s): 堀越正美
  • Organizer: 第30回日本分子生物学会年会・第80回日本生化学会大会合同大会(ヒストンシャペロン)
  • Place of Presentation: 横浜
  • Year and Date: 2007-12-11
• [Presentation] ヒストンシャペロン;半保存的ヌクレオソーム複製及びエピジェネティック情報伝達-ヒストンシャペロン単離からヌクレオソーム構造変換機構までの30年- (2007)
  • Author(s): 堀越 正美
  • Organizer: 第30回日本分子生物学会年会・第80回日本生化学会大会合同大会
  • Place of Presentation: 横浜
  • Year and Date: 2007-12-11
• [Presentation] DNA の半保存的複製からヌクレオソームの半保存的複製モデルへ.From DNA semi-conservative replication to nucleosome semi-conservative replication model (2007)
  • Author(s): 堀越正美
  • Organizer: 国際シンポジウム "Gene expression control and genome evolution"日本遺伝学会第79回大会
  • Place of Presentation: 岡山
  • Year and Date: 2007-09-19
• [Presentation] DNAの半保存的複製からヌクレオソームの半保存的複製モデルへFrom DNA semi-conservative replication to nucleo somesemi-conservative replication model (2007)
  • Author(s): 堀越 正美
  • Organizer: 国際シンポジウム"Geneexpressioncontrolandgenomeevolution"日本遺伝学会第79回大会
  • Place of Presentation: 岡山
  • Year and Date: 2007-09-19
• [Presentation] Gene regulation on both transcription and replication at nucleosomal level-Combinatory analyses of comprehensive mutant library and microarray- (2007)
  • Author(s): M. Horikoshi
  • Organizer: World Microarray Congress2007
  • Place of Presentation: Vancouver, Canada
  • Year and Date: 2007-06-29
• [Presentation] Gene regulation on both transcription and replication at nucleosomal levei-Combinatory analyses of comprehensive mutant library and microarray- (2007)
  • Author(s): M. Horikoshi
  • Organizer: World Microarray Congress2007
  • Place of Presentation: Vancouver,Canada
  • Year and Date: 2007-06-29
• [Presentation] Watson-CrickによるDNAの半保存的複製からヌクレオソームの半保存的複製モデルへ (2007)
  • Author(s): 堀越正美
  • Organizer: 第7回日本蛋白質科学会年会
  • Place of Presentation: 仙台
  • Year and Date: 2007-05-26
• [Presentation] From DNA semi-conservative replication to nucleosome semi-conservative replication model (2007)
  • Author(s): M. Horikoshi
  • Organizer: The 7th MBSJ Spring Symposium "Biology-old codes and new molecules"
  • Place of Presentation: Awaji, Hyogo, Japan
  • Year and Date: 2007-04-23
• [Presentation] From DNAsemi-conservative replication to nucleosome semi-conservative replication model (2007)
  • Author(s): M. Horikoshi
  • Organizer: The 7th MBSJ Spring Symposium"Bioiogy-old codes and new molecules"
  • Place of Presentation: Awaji,Hyogo,Japan
  • Year and Date: 2007-04-23
• [Presentation] Structure and functional basis of the histone chaperone CIA/ASF1-histone H3-H4 complex (2007)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia : Mechanisms of Eukaryotic Transcription
  • Place of Presentation: Denver, CO, USA
  • Year and Date: 2007-04-12
• [Presentation] Structure and functional basis of the histone chaperone CIA/ASFI-histoneH3-H4 complex (2007)
  • Author(s): M. Horikoshi
  • Organizer: Keystone Symposia:Mechanisms of Eukaryotic Transcription
  • Place of Presentation: Denver,CO,USA
  • Year and Date: 2007-04-12
• [Book] スーパーサイエンスハイスクール講義 (2009)
  • Author(s): 堀越正美
  • Total Pages: 272
  • Publisher: 培風館