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Structure and organization of nano-sized giant hemoglobin

Planned Research

Project/Area Number 16087205
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionKanazawa University

Principal Investigator

FUKUMORI Yoshihiro  Kanazawa University, 自然システム学系, 教授 (60135655)

Co-Investigator(Kenkyū-buntansha) 金森 正明  金沢大学, 自然科学研究科, 講師 (20324064)
Co-Investigator(Renkei-kenkyūsha) NUMOTO Nobutaka  京都大学, 原子炉実験所, 助教 (20378582)
Project Period (FY) 2004 – 2009
Project Status Completed (Fiscal Year 2009)
Budget Amount *help
¥76,000,000 (Direct Cost: ¥76,000,000)
Fiscal Year 2009: ¥10,500,000 (Direct Cost: ¥10,500,000)
Fiscal Year 2008: ¥10,500,000 (Direct Cost: ¥10,500,000)
Fiscal Year 2007: ¥14,600,000 (Direct Cost: ¥14,600,000)
Fiscal Year 2006: ¥15,100,000 (Direct Cost: ¥15,100,000)
Fiscal Year 2005: ¥17,000,000 (Direct Cost: ¥17,000,000)
Fiscal Year 2004: ¥8,300,000 (Direct Cost: ¥8,300,000)
Keywords巨大ヘモグロビン / 立体構造 / 協同性 / 有鬚動物 / 超分子複合体 / ヘモグロビン / 環形動物 / 酸素協同性 / 金属イオン / 酸素親和性 / 酸素 / 海産無脊椎動物 / 硫化物 / ナノバイオ / 超分子 / ジスルフィド結合
Research Abstract

A marine invertebrate, Oligobrachia mashikoi, has a novel extracellular giant hemoglobin which transports oxygen and sulfide simultaneously. In the present study, we determined the crystal structures of a 400-kDa Hb oxy from and deoxy form by X-ray crystallographic analyses and proposed the new mechanism on oxygen cooperativity which is quite different from those of the well-studied mammalian Hbs.

Report

(7 results)
  • 2009 Annual Research Report   Final Research Report ( PDF )
  • 2008 Annual Research Report
  • 2007 Annual Research Report
  • 2006 Annual Research Report
  • 2005 Annual Research Report
  • 2004 Annual Research Report
  • Research Products

    (55 results)

All 2009 2008 2007 2006 2005 2004 Other

All Journal Article (28 results) (of which Peer Reviewed: 17 results) Presentation (23 results) Book (1 results) Remarks (3 results)

  • [Journal Article] Identification of iron transporters expressed in the magnetotactic bacterium Magnetospirillum magnetotucticum2009

    • Author(s)
      Taoka A.Umeyama C, Fukumori Y.
    • Journal Title

      Curr.Microbiol. 58

      Pages: 177-181

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 巨大ヘモグロビンの構造と機能2008

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Journal Title

      日本血液代替物学会誌「人工血液」 16

      Pages: 188-197

    • Related Report
      2009 Final Research Report
  • [Journal Article] Distribution and population of free-living cells related to endosymbiont a harbored in Oligobrachia mashikoi (a Siboglinid Polychaete) inhabiting Tsukumo Bay.2008

    • Author(s)
      Aida, M., M. Kanemori, Kubota, N., Matada, M., Sasayama, Fukumori, Y
    • Journal Title

      Microbes and Environments 23

      Pages: 81-88

    • NAID

      110006633697

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure of the partially unliganded met state of 400 kDa hemoglobin: Insights into ligand-induced structural changes of giant hemoglobins.2008

    • Author(s)
      Numoto, N., Nakagawa, T., Kita, A., Sasayama, Y., Fukumori, Y., Miki, K.
    • Journal Title

      Proteins 73

      Pages: 113-125

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structural basis for the heterotropic and homotropic interactions of invertebrate giant hemoglobin.2008

    • Author(s)
      Numoto, N., Nakagawa, T., Kita, A., Sasayama, Y., Fukumori, Y., Miki, K.
    • Journal Title

      Biochemistry 47

      Pages: 11231-11238

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure of the partially unliganded met state of 400 kDa hemoglobin : Insights into ligand-induced structural changes of giant hemoglobins2008

    • Author(s)
      Numoto, N
    • Journal Title

      Proteins 73

      Pages: 113-125

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural basis for the heterotropic and homotropic interactions of invertebrate giant hemoglobin2008

    • Author(s)
      Numoto, N
    • Journal Title

      Biochemistry 47

      Pages: 11231-11238

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 巨大ヘモグロビンの構造と機能2008

    • Author(s)
      沼本修孝
    • Journal Title

      日本血液代替物学会誌「人工血液」 16

      Pages: 188-197

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Oxygenation Properties of Extracellular Giant Hemoglobin from Oligobrachia mashikoi2007

    • Author(s)
      Aki, Y., Nakagawa, T, Nagai, Y., Sasayama, Y, Fukumori, Y, K. Imai
    • Journal Title

      Biochem. Biophys. Res. Comm. 360

      Pages: 673-678

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Identification of endosymbionts in Oligobrachia mashikoi (Siboglinidae, Annelida)2007

    • Author(s)
      Kubota N, Kanemori M, Sasayama Y, Aida M, Fukumori Y
    • Journal Title

      Microbes and Environments 22(2)

      Pages: 136-144

    • NAID

      110006290376

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Actual distribution of bacteriocytes in the trophosome of a beard worm (Oligobrachia mashikoi, Siboglinidae, Annelida): Clarification using whole-mount in situ hybridization.2007

    • Author(s)
      Deguchi, M, Kubota, N, Matsuno, A, Kanemori, M, Fukumori Y, Sasayama Y
    • Journal Title

      Acta Zoologica 88

      Pages: 129-135

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Relationship between the lifestyle of a Siboglinid (Pogonophoran) polychaete, Oligobrachia mashikoi, and the total sulfide and nitrogen levels in its habitat.2007

    • Author(s)
      Sasayama Y., Higashide Y., Sakai M., Tatada M., Fukumori Y.
    • Journal Title

      Zoolog Sci. 24

      Pages: 131-136

    • NAID

      130000016953

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Oxygenation Properties of Extracellular Giant Hemoglobin from Oligobrachiamashikoi2007

    • Author(s)
      Y. Aki
    • Journal Title

      Biochem. Biophys. Res. Comm. 360

      Pages: 673-678

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Identification of endosymbionts in Oligobrachia mashikoi (Siboglinidae, Annelida)2007

    • Author(s)
      Kubota N
    • Journal Title

      Microbes and Environments 22

      Pages: 136-144

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Actual distribution of bacteriocytes in the trophosome of a beard worm (Oligobrachia mashikoi, Siboglinide, Annelida): Clarification using whole-mount in situ hybridization.2007

    • Author(s)
      Deguchi, M
    • Journal Title

      Acta Zoologica 88

      Pages: 129-135

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Actual distribution of bacteriocytes in the trophosome of a beard worm(Oligobrachia mashikoi, Siboglinidae, Annelida) : clarification using whole-mount in situ hybridizaiton2007

    • Author(s)
      M.Deguchi et al.
    • Journal Title

      Acta Zoologies 88

      Pages: 129-135

    • Related Report
      2006 Annual Research Report
  • [Journal Article] 巨大ヘモグロビンの謎に迫る?X線結晶構造解析で構造と機能を解き明かせ!2006

    • Author(s)
      沼本修孝、福森義宏、三木邦夫
    • Journal Title

      化学 61

      Pages: 30-34

    • Related Report
      2009 Final Research Report
  • [Journal Article] 巨大ヘモグロビンの謎に迫る-X線結晶構造解析で構造と機能を解き明かせ!2006

    • Author(s)
      沼本修孝 他
    • Journal Title

      化学 61・3

      Pages: 30-34

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Spatial localizations of Mam22 and Mam12 in the magnetosomes of Magnetospirillum magnetotacticum.2006

    • Author(s)
      Taoka, A.et al.
    • Journal Title

      Journal of Bacteriology 188・11

      Pages: 3805-3812

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Spatial Localizations of Mam22 and Mam12 in the magnetosomes of Magnetospirillum magnetotacticum2006

    • Author(s)
      A.Taoka et al.
    • Journal Title

      J.Bact. (In press)

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Purification, characterization and sequence analyses of the extracellular giant hemoglobin from Oligobrachia mashikoi.2005

    • Author(s)
      T. Nakagawa, S. Onoda, M. Kanemori, Y. Sasayama, Y. Fukumori
    • Journal Title

      Zool. Sci 22

      Pages: 283-291

    • NAID

      110006281799

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and preliminary X-ray crystallographic analysis of extracellular giant hemoglobin from pogonophoran Oligobrachia mashikoi.2005

    • Author(s)
      Numoto, N., Nakagawa, T., Kita, A., Sasayama, Y., Fukumori, Y., Miki, K.
    • Journal Title

      Biochim. Biophys. Acta 1750

      Pages: 173-176

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure of an extracellular giant hemoglobin of the gutless beard worm Oligobrachia mashikoi.2005

    • Author(s)
      Numoto, N., Nakagawa, T., Kita, A., Sasayama, Y., Fukumori, Y., Miki, K.
    • Journal Title

      Proc. Natl. Acad. Sci. USA 102

      Pages: 14521-14526

    • Related Report
      2009 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure of an extracellular giant hemoglobin of the gutless beard worm Oligobrachia mashikoi2005

    • Author(s)
      N.Numoto et al.
    • Journal Title

      Proc.Natl.Acad.Sci.USA 102

      Pages: 14521-14526

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Crystallization and preliminary X-ray crystallographic analysis of extracellular giant hemoglobin from pogonophoran Oligobrachia mashikoi2005

    • Author(s)
      N.Numoto et al.
    • Journal Title

      Biochim.Biophys.Acta 1750

      Pages: 173-176

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Purification, characterization and sequence analyses of the extracellular giant hemoglobin from Oligobrachia mashikoi2005

    • Author(s)
      T.Nakagawa et al.
    • Journal Title

      Zoological Science 22・3

      Pages: 283-291

    • Related Report
      2004 Annual Research Report
  • [Journal Article] NO Reduction by Nitric-oxide Reductase from Denitrifying Bacterium Pseudomonas aeruginosa2004

    • Author(s)
      H.Kumita et al.
    • Journal Title

      J.Biol.Chem. 279・53

      Pages: 55247-55254

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Conserved region 2.1 of Escherichia coli heat shock transcription factor σ^<32> is required for modulating both metabolic stability and transcriptional activity.2004

    • Author(s)
      M.Horikoshi et al.
    • Journal Title

      J Bacteriol. 186・22

      Pages: 7474-7480

    • Related Report
      2004 Annual Research Report
  • [Presentation] サツマハオリムシV2巨大ヘモグロビン(分子量40万)の結晶構造2009

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティ徳島(徳島)
    • Year and Date
      2009-10-31
    • Related Report
      2009 Final Research Report
  • [Presentation] サツマハオリムシV2巨大ヘモグロビン(分子量40万)の結晶構造2009

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま(徳島)
    • Year and Date
      2009-10-31
    • Related Report
      2009 Annual Research Report
  • [Presentation] サツマハオリムシV2ヘモグロビンのX線結晶構造解析2009

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第82回日本生化学会大会
    • Place of Presentation
      神戸ポートアイランド(兵庫)
    • Year and Date
      2009-10-22
    • Related Report
      2009 Final Research Report
  • [Presentation] サツマハオリムシV2ヘモグロビンのX線結品構造解析2009

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第82回日本生化学会大会
    • Place of Presentation
      神戸国際展示場(兵庫)
    • Year and Date
      2009-10-22
    • Related Report
      2009 Annual Research Report
  • [Presentation] 巨大ヘモグロビン(400 kDa)のリガンド結合に伴う協同的な構造変化2009

    • Author(s)
      沼本修孝, 中川太郎, 喜田昭子, 笹山雄一, 福森義宏, 三木邦夫
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ(熊本)
    • Year and Date
      2009-05-22
    • Related Report
      2009 Final Research Report
  • [Presentation] 巨大ヘモグロビン(400kDa)のリガンド結合に伴う協同的な構造変化2009

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテル(熊本)
    • Year and Date
      2009-05-22
    • Related Report
      2009 Annual Research Report
  • [Presentation] 環形動物巨大ヘモグロビン(分子量360万)の5. 6 A分解能X線結晶構造解析2008

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第31回秘本分子生物学会年会・第81回日本生化学会大会合同大会
    • Place of Presentation
      神戸ポートアイランド(兵庫)
    • Year and Date
      2008-12-12
    • Related Report
      2009 Final Research Report
  • [Presentation] 環形動物巨大ヘモグロビンの構造生物学-ヒトヘモグロビンとは異なる酸素協同性機構-2008

    • Author(s)
      福森義宏
    • Organizer
      第81回日本生化学会大会(BMB2008)
    • Place of Presentation
      神戸ポートアイランド
    • Year and Date
      2008-12-12
    • Related Report
      2008 Annual Research Report
  • [Presentation] 超分子複合体タンパク質の微少重力下での結晶化2008

    • Author(s)
      長谷川裕
    • Organizer
      日本生物物理学会第46回年会
    • Place of Presentation
      福岡国際会議場
    • Year and Date
      2008-12-04
    • Related Report
      2008 Annual Research Report
  • [Presentation] サツマハオリムシ巨大ヘモグロビン(分子量360万)の5. 6 A分解能結晶構造2008

    • Author(s)
      沼本修孝, 中川太郎, 福森義宏, 三木邦夫
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2008-12-03
    • Related Report
      2009 Final Research Report
  • [Presentation] 環形動物マシコヒゲムシの細胞外巨大ヘモグロビンの円二色性スペクトル2008

    • Author(s)
      中川太郎
    • Organizer
      日本生物物理学会第46回年会
    • Place of Presentation
      福岡国際会議場
    • Year and Date
      2008-12-03
    • Related Report
      2008 Annual Research Report
  • [Presentation] サツマハオリムシ巨大ヘモグロビンの5.6A分解能結晶構造2008

    • Author(s)
      沼本修孝
    • Organizer
      日本生物物理学会第46回年会
    • Place of Presentation
      福岡国際会議場
    • Year and Date
      2008-12-03
    • Related Report
      2008 Annual Research Report
  • [Presentation] Ligand-induced structural changes of giant hemoglobin, XXI Congress and General Assembly of the International Union of Crystallography2008

    • Author(s)
      Nobutaka Numoto, Taro Nakagawa, Akiko Kita, Yuichi Sasayama, Yoshihiro Fukumori, Kunio Miki
    • Organizer
      invited lecture for Microsymposia "Large macromolecular complexes"
    • Place of Presentation
      Osaka International Convention Center (Japan)
    • Year and Date
      2008-08-24
    • Related Report
      2009 Final Research Report
  • [Presentation] Ligand-induced structural changes of giant hemoglobin2008

    • Author(s)
      Nobutaka Numoto
    • Organizer
      XXI Congress of the International Union of Crystallography
    • Place of Presentation
      大阪国際会議場
    • Year and Date
      2008-08-24
    • Related Report
      2008 Annual Research Report
  • [Presentation] 無脊椎動物巨大ヘモグロビンの高分解能結晶構造2008

    • Author(s)
      沼本修孝, 中川太郎, 喜田昭子, 笹山雄一, 福森義宏, 三木邦夫
    • Organizer
      第21回日本放射光学会年会・放射光科学合同シンポジウム
    • Place of Presentation
      立命館大学(滋賀)
    • Year and Date
      2008-01-14
    • Related Report
      2009 Final Research Report
  • [Presentation] マシコヒゲムシ巨大へモグロビンの酸素結合性2007

    • Author(s)
      安藝弥生
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター
    • Year and Date
      2007-05-25
    • Related Report
      2007 Annual Research Report
  • [Presentation] マシコヒゲムシ巨大ヘモグロビンの金属結合型結晶構造2007

    • Author(s)
      沼本修孝, 中川太郎, 喜田昭子, 笹山雄一, 福森義宏, 三木邦夫
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター(仙台)
    • Year and Date
      2007-05-24
    • Related Report
      2009 Final Research Report
  • [Presentation] Crystal Structure of Extracellular Giant Hemoglobin of Pogonophoran Oligobrachia mashikoi2006

    • Author(s)
      Nobutaka Numoto, Taro Nakagawa, Akiko Kita, Yuichi Sasayama, Yoshihiro Fukumori, Kunio Miki
    • Organizer
      The 7th Conference of the Asian Crystallographic Association (AsCA' 06/CrSJ)
    • Place of Presentation
      Epochal Tsukuba, (Japan)
    • Year and Date
      2006-11-22
    • Related Report
      2009 Final Research Report
  • [Presentation] マシコヒゲムシ巨大ヘモグロビンの一部酸素結合型結晶構造2006

    • Author(s)
      沼本修孝, 中川太郎, 喜田昭子, 笹山雄一, 福森義宏, 三木邦夫
    • Organizer
      第6回日本蛋白質科学会年会
    • Place of Presentation
      国立京都国際会館(京都)
    • Year and Date
      2006-04-26
    • Related Report
      2009 Final Research Report
  • [Presentation] 巨大へモグロビンの分子会合機構2005

    • Author(s)
      沼本修孝, 中川太郎, 喜田昭子, 笹山雄一, 福森義宏, 三木邦夫
    • Organizer
      第43回日本生物物理学会年会
    • Place of Presentation
      札幌コンベンションセンター(北海道)
    • Year and Date
      2005-11-25
    • Related Report
      2009 Final Research Report
  • [Presentation] Structure of a giant hemoglobin of the gutless beard worm Oligobrachia mashikoi2005

    • Author(s)
      Nobutaka Numoto, Taro Nakagawa, Akiko Kita, Yuichi Sasayama, Yoshihiro Fukumori, Kunio Miki
    • Organizer
      XX Congress of the International Union of Crystallography
    • Place of Presentation
      Fortezza da Basso (Italy)
    • Year and Date
      2005-08-28
    • Related Report
      2009 Final Research Report
  • [Presentation] マシコヒゲムシ巨大ヘモグロビンの結晶構造2005

    • Author(s)
      沼本修孝, 中川太郎, 喜田昭子, 笹山雄一, 福森義宏, 三木邦夫
    • Organizer
      第5回日本蛋白質科学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2005-06-30
    • Related Report
      2009 Final Research Report
  • [Presentation] Crystallographic Study of Multi Hemoglobin System from Oligobrachia mashikoi2004

    • Author(s)
      Nobutaka Numoto, Taro Nakagawa, Akiko Kita, Yoshihiro Fukumori, Kunio Miki
    • Organizer
      The 1st Pacific-Rim International Conference on Protein Science
    • Place of Presentation
      Pacifico Yokohama (Japan)
    • Related Report
      2009 Final Research Report
  • [Book] Biomineralization (E.Baeuerlein ed.)2004

    • Author(s)
      Y.Fukumori
    • Total Pages
      15
    • Publisher
      WILEY-VCH
    • Related Report
      2004 Annual Research Report
  • [Remarks]

    • URL

      http://pronet.s.kanazawa-u.ac.jp/

    • Related Report
      2009 Final Research Report
  • [Remarks]

    • URL

      http://pronet.s.kanazawa-u.ac.jp/j/study.html

    • Related Report
      2009 Annual Research Report
  • [Remarks]

    • URL

      http://pronet.s.kanazawa-u.ac.jp/

    • Related Report
      2008 Annual Research Report

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Published: 2004-04-01   Modified: 2018-03-28  

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