Molecular analyses on the replication initiation complex and its novel regulatory factors in E. coli

2012 Fiscal Year Final Research Report

• Project/Area Number: 22370064
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Molecular biology
• Research Institution: Kyushu University
• Principal Investigator: KATAYAMA Tsutomu 九州大学, 大学院・薬学研究院, 教授 (70264059)
• Co-Investigator(Kenkyū-buntansha): UEDA Tadashi 九州大学, 大学院・薬学研究院, 教授 (90184928)
• Project Period (FY): 2010 – 2012
• Keywords: DnaA / DnaB / oriC / ATP / 細胞周期制御 / 染色体複製開始制御 / タンパク質高次複合体 / 試験管内再構成

Research Abstract

The initiation of the chromosomal DNA replication requires formation of higher-order nucleoprotein complexes and their functions must be regulated during the cell cycle. In this study, by analyzing higher-order complexes formed by the replication origin DNA and the replication initiator DnaA protein in E. coli as a model cell, we identified subcomplexes important for replication initiation reactions and revealed novel molecular mechanisms. Moreover, by analyzing major factors regulating DnaA functions, we revealed a novel regulatory mechanism for DnaA in addition to novel interaction modes between DnaA and the factors

Research Products

• [Journal Article] The DnaA N-terminal domain interacts with Hda to facilitate replicase clamp-mediated inactivation of DnaA (2013)
  • Author(s): Su'etsugu, M., Harada, Y., Keyamura, K., Matsunaga, C., Kasho, K., Abe, Y., Ueda, T. and Katayama, T.
  • Journal Title: nviron. Microbiol. Volume: (印刷中)
  • DOI: DOI:10.1111/1462-2920.12147
  • Peer Reviewed
• [Journal Article] DnaA-binding locus datA promotes DnaA-ATP hydrolysis to enable cell cycle-coordinated replication initiation (2013)
  • Author(s): Kasho K., and Katayama,T.
  • Journal Title: Proc. Natl. Acad. Sci. USA Volume: 110 Pages: 946-941
  • DOI: DOI:10.1073/pnas.1212070110
  • Peer Reviewed
• [Journal Article] Highly organized DnaA-oriC complexes recruit the single-stranded DNA for replication initiation (2012)
  • Author(s): Ozaki, S., and Katayama, T.
  • Journal Title: Nucleic Acids Res. Volume: 40 Pages: 1648-1665
  • DOI: DOI:10.1093/nar/gkr832
  • Peer Reviewed
• [Journal Article] Differentiation of the DnaA-oriC sub-complex for DNA unwinding in a replication initiation complex (2012)
  • Author(s): Ozaki, S., Noguchi, Y., Hayashi, Y., Miyazaki, E., and Katayama, T.
  • Journal Title: J. Biol. Chem. Volume: 287 Pages: 37458-37471
  • DOI: DOI:10.1074/jbc.M112.371052
  • Peer Reviewed
• [Journal Article] table nucleotide binding to DnaA requires a specific glutamic acid residue within the AAA+ box II motif. (2012)
  • Author(s): Ozaki, S., Noguchi, Y., Nishimura, M., and Katayama, T.
  • Journal Title: J. Struct. Biol Volume: 179 Pages: 242-250
  • DOI: DOI:10.1016/j.jsb2012.05.001
  • Peer Reviewed
• [Journal Article] The DnaA DNA-binding domain binds to Hda to promote the inter-AAA+ domain interaction involved in the regulatory inactivation of DnaA. (2011)
  • Author(s): Keyamura, K., and Katayama, T.
  • Journal Title: J. Biol. Chem. Volume: 286 Pages: 29336-29436
  • DOI: DOI:10.1074/jbc.M111.233403.
  • Peer Reviewed
• [Journal Article] Suppressors of DnaA-ATP imposed overinitiation in Escherichia coli. (2011)
  • Author(s): Lobner-Olesen, A
  • Journal Title: Mol. Microbiol. Volume: 79 Pages: 914-928
  • DOI: DOI:10.1111/j.1365-2958.2010.07493.x
  • Peer Reviewed
• [Journal Article] Novel essential residues of Hda for interaction with DnaA in the regulatory inactivation of DnaA: Unique roles for Hda AAA+ Box VI and VII motifs. (2010)
  • Author(s): Nakamura, K. and Katayama, T.
  • Journal Title: Mol. Microbiol. Volume: 76 Pages: 302-317
  • DOI: DOI:10.1111/j.1365-2958.2010.07074.x.
  • Peer Reviewed
• [Journal Article] Regulation of the replication cycle: Conserved and diverse regulatory systems for DnaA and oriC (2010)
  • Author(s): Katayama, T., Ozaki, S., Keyamura, K. and Fujimitsu, K.
  • Journal Title: Nature Rev. Microbiol. Volume: 8 Pages: 163-170
  • DOI: DOI:10.1038/nrmicro2314
  • Peer Reviewed
• [Journal Article] DnaA, ORC, and Cdc6: Similarity beyond the domains of life and diversity (2010)
  • Author(s): Kawakami, H. and Katayama, T.
  • Journal Title: Biochem. Cell Biol Volume: 88 Pages: 49-62
  • DOI: DOI:10.1139/o09-154.
  • Peer Reviewed
• [Presentation] A novel mechanism of a specific DnaA-binding locus datA for regulation of the replication initiator DnaA (2013)
  • Author(s): Kasho, K. and Katayama, T.
  • Organizer: Keystone Symposia X5/X6 DNA Replication and Recombination
  • Place of Presentation: Banff, Canada
  • Year and Date: 20130303-08
• [Presentation] Specific inter-DnaA interaction for construction of functionally-distinct DnaA sub-complexes on the E. coli replication origin (2013)
  • Author(s): Noguchi, Y., Ozaki, S., Miyazaki, E., and Katayama,T
  • Organizer: Keystone Symposia X5/X6 DNA Replication and Recombination. Keystone Symposia X5/X6 DNA Replication and Recombination
  • Place of Presentation: Banff, Canada.
  • Year and Date: 20130303-08
• [Presentation] DnaA制御サイクルの再構築による解明:新たなDnaA-ATP加水分解経路と核様体構築因子の役割. (2012)
  • Author(s): 片山勉、加生和寿、藤光和之、尾崎省吾、野口泰徳、宮崎恵里加、増田圭美、末次正幸、川上広宣.
  • Organizer: 85回日本生化学会大会 シンポジウム「細胞周期進行とゲノムの安定な維持を支える染色体イベントの酵素学的合成生物学的再構築による解明」(オーガナイザー:正井久雄、片山 勉)
  • Place of Presentation: 福岡
  • Year and Date: 20121214-16
• [Presentation] 大腸菌の開始複合体の解析から見えてきた基盤システム. (2012)
  • Author(s): 片山 勉、尾崎省吾、野口泰徳、宮崎恵里加、川上広宣
  • Organizer: 第35回日本分子生物学会年会 ワークショップ「DNA複製機構とその制御---生物種を超えた統一的理解を目指して---」
  • Place of Presentation: 福岡
  • Year and Date: 20121211-14
• [Presentation] Finding and molecular analysis of a novel inactivation mechanism for the replication initiator DnaA by a specific chromosomal locus. (2012)
  • Author(s): 加生和寿、片山 勉
  • Organizer: 第35回日本分子生物学会年会 ワークショップ「Chromosome replication and its coordination with nucleo-cellular functions」(オーガナイザー:田中誠司、杉本のぞみ)
  • Place of Presentation: 福岡
  • Year and Date: 20121211-14
• [Presentation] 大腸菌複製開始複合体の構造構築様式の解析 (2012)
  • Author(s): 片山 勉、尾崎省吾、野口泰徳、宮崎恵里加.
  • Organizer: 日本遺伝学会第84回大会 ワークショップ「原核生物に習う遺伝情報安定性の維持機構の原理」
  • Place of Presentation: 福岡
  • Year and Date: 20120924-26
• [Presentation] Dynamics in DNA unwinding of the DnaA-oriC complex (2011)
  • Author(s): Ozaki, S. and Katayama, T.
  • Organizer: 第34回日本分子生物学会年会シポンジウム"Frontier of reconstitution biology toward understanding of principals in dynamics of higher-order complexes"(Organizers: Katayama,T.,Iwasaki,H.)
  • Place of Presentation: 横浜
  • Year and Date: 20111213-16
• [Presentation] Architecture and mechanism for DNA unwinding of the ATP-DnaA initiation complex of the E. colichromosomal replication. (2011)
  • Author(s): Ozaki, S. and Katayama, T.
  • Organizer: 9th International Conference on AAA Proteins
  • Place of Presentation: Kumamoto
  • Year and Date: 20111106-10
• [Presentation] The Interaction Mode between DnaA and Had AAA+ Proteins in Regulatory Inactivation of DnaA (2011)
  • Author(s): Keyamura, K. and Katayama, T
  • Organizer: 9th International Conference on AAA Proteins.
  • Place of Presentation: Kumamoto
  • Year and Date: 20111106-10
• [Presentation] Search and analysis for novel stimulators of DARS2, DnaA-reactivating sequence 2. (2011)
  • Author(s): Kasho, K., Fujimitsu, K. and Katayama, T.
  • Organizer: 9th International Conference on AAA Proteins.
  • Place of Presentation: Kumamoto
  • Year and Date: 20111106-10
• [Presentation] Role for a residue within AAA+ domain of DnaA protein in stable maintenance of bound nucleotide (2011)
  • Author(s): Noguchi, Y., Ozaki, S. and Katayama, T.
  • Organizer: 9th International Conference on AAA Proteins
  • Place of Presentation: Kumamoto
  • Year and Date: 20111106-10
• [Presentation] DnaA不活性化因子Hdaの活性制御に必要なクランプの機能構造解析 (2011)
  • Author(s): 増田圭美、毛谷村賢司、片山 勉
  • Organizer: 21回 DNA 複製・組換え・ゲノム安定性制御ワークショップ
  • Place of Presentation: 福岡県福津市
  • Year and Date: 20111025-27
• [Presentation] DnaAドメインIとクランプ-Hda複合体の相互作用様式の解明 (2011)
  • Author(s): 原田雄二、毛谷村賢司、片山 勉
  • Organizer: 第21回 DNA複製・組換え・ゲノム安定性制御ワークショップ
  • Place of Presentation: 福岡県福津市
  • Year and Date: 20111025-27
• [Presentation] 大腸菌染色体の複製開始複合体のアーキテクチャアとメカニズム (2011)
  • Author(s): 尾崎省吾、片山 勉
  • Organizer: 日本遺伝学会第83回大会ワークショップ「ゲノムの恒常性と可塑性を保障する高次複合体の制御機構」
  • Place of Presentation: 京都
  • Year and Date: 20110920-23
• [Presentation] Interaction modes between DnaA and DiaA ininitial complexes in E. coli. (2011)
  • Author(s): Keyamura, K., Higashi, M. and Katayama, T.
  • Organizer: Keystone Symposia on Molecular and Cellular Biology: DNA replication and Recombination
  • Place of Presentation: Keystone, Colorado, USA
  • Year and Date: 20110227-0304
• [Presentation] DnaA, the replication initiator, is activated for the timely initiation of the chromosomal replication by a specific DNA element, DARS (2011)
  • Author(s): Fujimitsu, K., Kasho, K., Ozaki, S., Keyamura, K. and Katayama, T.
  • Organizer: International Symposium on the Physicochemical Field for Genetic Activities
  • Place of Presentation: Awaji
  • Year and Date: 20110124-26
• [Presentation] 大腸菌染色体複製を開始する超高次DnaA-oriC複合体の機能的制御機構 (2010)
  • Author(s): 尾崎省吾、片山 勉
  • Organizer: 第33回日本分子生物学会年会ワークショップ「染色体複製とその制御における超高次複合体のダイナミクス」
  • Place of Presentation: 神戸
  • Year and Date: 20101207-10
• [Presentation] DARS, DnaA-reactivating sequence promotes exchange of DnaA-bound ADP to ATP. (2010)
  • Author(s): Fujimitsu, K., Kasho, K., Ozaki, S., Senriuchi, T. and Katayama, T.
  • Organizer: EMBO Conference Series; Replication, Repair & Segregation of Chromosomes
  • Place of Presentation: Germany
  • Year and Date: 20100613-17
• [Presentation] Mechanism for ATP-DnaA-dependent unwinding of duplex DNA within the chromosomal replication origin. (2010)
  • Author(s): Shogo, O. and Katayama, T
  • Organizer: EMBO Conference Series; Replication, Repair & Segregation of Chromosomes, Freiburg-Munzingen
  • Place of Presentation: Germany
  • Year and Date: 20100613-17
• [Book] In "DNA Replication", Edited by Bell, S.D., Me'chali, M, and DePamphilis, M.L., Regulating DNA Replication in Bacteria (2013)
  • Author(s): Skarstad, K. and Katayama, T
  • Total Pages: 343-359
  • Publisher: Cold Spring Harbor Laboratory Press
• [Book] In "Escherichia coli and Bacillus subtilis; The Frontiers of Molecular Microbiology Revisited", Chromosome replication in E. coli and B. subtilis. (2012)
  • Author(s): Su'etsugu. M., and Katayama, T.Edited by Yoshito Sadaie and Kouji Matsumoto
  • Total Pages: 29-43
  • Publisher: Research Signpost.
• [Book] 実験医学「細胞を創る・生命システムを創る」次制御機構を備えた新たなゲノム複製系の再構成に向かって (2011)
  • Author(s): 片山 勉
  • Total Pages: 83-89
  • Publisher: 羊土社
• [Remarks] 九州大学・大学院薬学研究院・分子生物薬学分野
  • URL: http://bunsei.phar.kyushu-u.ac.jp