• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Elucidation of mobile loop functions in food-related enzymes

Research Project

Project/Area Number 24380054
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Applied biochemistry
Research InstitutionKyoto University

Principal Investigator

MIKAMI Bunzo  京都大学, (連合)農学研究科(研究院), 教授 (40135611)

Project Period (FY) 2012-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥16,510,000 (Direct Cost: ¥12,700,000、Indirect Cost: ¥3,810,000)
Fiscal Year 2014: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2013: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2012: ¥8,710,000 (Direct Cost: ¥6,700,000、Indirect Cost: ¥2,010,000)
Keywords応用構造生物学 / タンパク質工学 / 酵素工学 / X線結晶構造解析 / 酵素反応機構 / タンパク質結晶構造解析 / 構造生物学 / タンパク質構造変化 / 食品関連酵素 / 酵素反応
Outline of Final Research Achievements

The functions of proteins are usually expressed by conformational changes in loop regions. We have investigated the mobile loops in food-related enzymes that are used in food industry. The mobile loops in the active sites of beta-amylase and alginate lyase that are important for incorporation of substrate and release of product are analyzed by X-ray crystal analyses of their mutant enzymes. The x-ray analysis of the mutants of pro protein-glutaminase (A47Q, A47E) showed that this enzyme can catalyze the reverse reaction in its catalytic pocket. The 24mer peptide derived from pro-region of transglutaminase inhibited the enzyme. We have determined the structure of the enzyme/peptide complex by x-ray analysis.

Report

(4 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Annual Research Report
  • 2012 Annual Research Report
  • Research Products

    (32 results)

All 2015 2014 2013 2012 Other

All Journal Article (13 results) (of which Peer Reviewed: 13 results,  Open Access: 8 results) Presentation (15 results) (of which Invited: 1 results) Remarks (4 results)

  • [Journal Article] Preliminary X-ray analysis of the binding domain of the soybean vacuolar sorting receptor complexed with a sorting determinant of a seed storage protein.2015

    • Author(s)
      Maruyama, N., Goshi, T., Sugiyama, S., Niiyama, M., Adachi, H., Takano, K., Murakami, S., Inoue, T., Mori, Y., Matsumura, H., Mikami, B.
    • Journal Title

      Acta Crystallogr. F Struct. Biol. Commun.

      Volume: 71 Issue: 2 Pages: 132-135

    • DOI

      10.1107/s2053230x14027484

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Metabolic fate of unsaturated glucuronic/iduronic acids from glycosaminoglycans: molecular identification and structure determination of streptococcal isomerase and dehydrogenase.2015

    • Author(s)
      Maruyama Y., Oiki S., Takase R., Mikami B., Murata K., Hashimoto, W.
    • Journal Title

      J. Biol. Chem.

      Volume: 290 Issue: 10 Pages: 6281-6292

    • DOI

      10.1074/jbc.m114.604546

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Crystal structure of 5-formyl-3-hydroxy-2-methylpyridine 4-carboxylic acid 5-dehydrogenase, an NAD⁺-dependent dismutase from Mesorhizobium loti.2015

    • Author(s)
      Mugo, A.N,. Kobayashi, J., Mikami, B., Yoshikane, Y., Yagi, T., Ohnishi, K.
    • Journal Title

      Biochem. Biophys. Res. Commun.

      Volume: 456 Issue: 1 Pages: 35-40

    • DOI

      10.1016/j.bbrc.2014.11.028

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structure-based conversion of the coenzyme requirement of a short-chain dehydrogenase/reductase involved in bacterial alginate metabolism.2015

    • Author(s)
      Takase, R., Mikami, B., Kawai, S., Murata, K., Hashimoto, W.
    • Journal Title

      J. Biol. Chem.

      Volume: 289 Issue: 48 Pages: 33198-33214

    • DOI

      10.1074/jbc.m114.585661

    • NAID

      120005690199

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Crystal structure of class III chitinase from pomegranate provides the insight into its metal storage capacity.2015

    • Author(s)
      Masuda, T., Zhao, G., Mikami, B..
    • Journal Title

      Biosci. Biotechnol. Biochem.

      Volume: 79 Pages: 45-50

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Atomic structure of recombinant thaumatin II reveals flexible conformations in two residues critical for sweetness and three consecutive glycine residues.2014

    • Author(s)
      Masuda, T., Mikami, B., Tani, F.
    • Journal Title

      Biochimie.

      Volume: 106 Pages: 33-38

    • DOI

      10.1016/j.biochi.2014.07.016

    • NAID

      120005682566

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The crystal structure of a crustacean prophenoloxidase provides a clue to understanding the functionality of the type 3 copper proteins.2014

    • Author(s)
      Masuda, T., Momoji, K., Hirata, T., Mikami, B.
    • Journal Title

      FEBS J.

      Volume: 281 Issue: 11 Pages: 2659-2673

    • DOI

      10.1111/febs.12812

    • NAID

      120005646484

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structure of 4-pyridoxolactonase from Mesorhizobium loti2014

    • Author(s)
      Kobayashi J, Yoshikane Y, Yagi T, Baba S, Mizutani K, Takahashi N, Mikami B
    • Journal Title

      Acta Crystallogr F Struct Biol Commun.

      Volume: 70 Issue: 4 Pages: 424-432

    • DOI

      10.1107/s2053230x14003926

    • Related Report
      2014 Annual Research Report 2013 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Crystal structure of a bacterial unsaturated glucuronyl hydrolase with specificity for heparin2014

    • Author(s)
      Yusuke Nakamichi, Bunzo Mikami, Kousaku Murata. and Wataru Hashimoto
    • Journal Title

      Journal of Biological Chemistry

      Volume: 289 Issue: 8 Pages: 4787-4797

    • DOI

      10.1074/jbc.m113.522573

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Purification, crystallization and preliminary crystallographic analysis of soybean mature glycinin A1bB22013

    • Author(s)
      Prak K, Mikami B, Itoh T, Fukuda T, Maruyama N, Utsumi S
    • Journal Title

      Acta Crystallogr Sect F Struct Biol Cryst Commun.

      Volume: 69 Issue: 8 Pages: 937-941

    • DOI

      10.1107/s1744309113019684

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Induced-fit motion of a lid loop involved in catalysis in alginate lyase Al-III.2012

    • Author(s)
      Mikami B.
    • Journal Title

      Acta Crystallogr D Biol Crystallogr

      Volume: 68 Issue: 9 Pages: 1207-1216

    • DOI

      10.1107/s090744491202495x

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal structure of a major seed storage protein, llS proglobulin, from Amaranthus hypochondriacus : insight into its physico-chemical properties2012

    • Author(s)
      Tandang-Silvas MR. Cabanos CS. Carrazco Pena LD. De la Rosa AP, 0suna-Castro JA. Utsumi S. Mikami B, Maruyama N.
    • Journal Title

      Food Chem

      Volume: 135 Issue: 2 Pages: 819-826

    • DOI

      10.1016/j.foodchem.2012.04.135

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structure of β-1, 4-mannanase from the common sea hare Aplysia kurodai at 1.05 Å resolution2012

    • Author(s)
      Kimihiko Mizutani, Sae Tsuchiya, Mayuko Toyoda, Yuko Naobu, Keiko Tomilaga, Keizo Yuasa, Nobuyuki Takahashi, Akihlko Tsuji and Bunzo Mikmi
    • Journal Title

      Acta Crystallographica Section F

      Volume: 68 Issue: 10 Pages: 1164-1168

    • DOI

      10.1107/s1744309112037074

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Presentation] β-アミラーゼ/マルトース不幸剛体結晶構造のpH変化2015

    • Author(s)
      三上文三、河村和広、安達基泰、水谷公彦、高橋延行
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山大学
    • Year and Date
      2015-03-28
    • Related Report
      2014 Annual Research Report
  • [Presentation] 麹菌Aspergillus oryzae由来グルコアミラーゼのX線構造解析2015

    • Author(s)
      永吉恵美、水谷公彦、高橋延行、三上文三、瀧井幸男
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山大学
    • Year and Date
      2015-03-28
    • Related Report
      2014 Annual Research Report
  • [Presentation] 甘味タンパク質ソーマチンの連続フェムト秒結晶構造解析2015

    • Author(s)
      桝田哲哉、南後恵理子、菅原道泰、鈴木守、登野健介、城地保昌、亀島敬、PARK Jaehyun、SongChangyong、初井宇記、矢橋牧名、大久保喬平、三上文三、北畠直文、谷史人、岩田想
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山大学
    • Year and Date
      2015-03-28
    • Related Report
      2014 Annual Research Report
  • [Presentation] 連鎖球菌による哺乳類細胞外マトリクス(グルコサミノグリカン)の分解:不飽和グルクニルヒドロラーゼの反応機構2015

    • Author(s)
      中道優介、老木紗予子、三上文三、村田幸作、橋本渉
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山大学
    • Year and Date
      2015-03-28
    • Related Report
      2014 Annual Research Report
  • [Presentation] イネにおけるジベレリン代謝酵素の構造と機能解析2015

    • Author(s)
      竹原清日、三上文三、樫尾徹、松岡信、上口美弥子
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山大学
    • Year and Date
      2015-03-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] 市街吸収分光法とX線結晶構造解析によるリジル‐tRNA合成酵素とL‐リジンの結合の解析およびその融合適合機構に対する洞察2015

    • Author(s)
      滝田禎亮、三上文三、井上國世
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山大学
    • Year and Date
      2015-03-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] ダイズβ-アミラーゼのSer297及びIl299変異体の酵素化学的性質と結晶構造2014

    • Author(s)
      河村和広、水谷公彦、高橋延行、三上文三
    • Organizer
      2014年度日本農芸化学会関西支部大会(第486回講演会)
    • Place of Presentation
      ・奈良先端科学技術大学院大学
    • Year and Date
      2014-09-20
    • Related Report
      2014 Annual Research Report
  • [Presentation] Structure and Function Analysis of Geobacillus Starch Antistaling Enzyme (SAS)2014

    • Author(s)
      Bunzo Mikami, Hirotaka Bitoh, Yurie Anzai, Kimihiko Mizutani, Nobuyuki Takahashi, Masamichi Okada, Shotaro, Yamaguchi
    • Organizer
      23rd Congress and General Assembly of the International Union of Crystallography
    • Place of Presentation
      Montreal, Canada
    • Year and Date
      2014-08-05 – 2014-08-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] X線結晶構造解析によるダイズβ-アミラーゼの反応機構の解明2013

    • Author(s)
      三上文三、姜有那、安達基泰、河村和広、水谷公彦、高橋延行
    • Organizer
      日本農芸化学2013年度大会
    • Place of Presentation
      東北大学川内北キャンパス(宮城県仙台市)
    • Year and Date
      2013-03-25
    • Related Report
      2012 Annual Research Report
  • [Presentation] X線結晶構造解析による酵素機能の解明2012

    • Author(s)
      三上文三
    • Organizer
      日本農芸化学会関西支部第477回講演会
    • Place of Presentation
      神尸大学大農学部(兵庫県神戸市)(招待講演)
    • Year and Date
      2012-12-01
    • Related Report
      2012 Annual Research Report
  • [Presentation] Crystal Structure of Protein-Glutaminase and Its Pro-Structures Similar to Enzyme- Substrate Complex2012

    • Author(s)
      Mikami B., Hashizume R., Mizutani K., Takahashi N., Matsubara H., Matsunaga A., Yamaguchi S.
    • Organizer
      27th European Crystallographic Meetings
    • Place of Presentation
      Bergen, Norway
    • Year and Date
      2012-08-09
    • Related Report
      2012 Annual Research Report
  • [Presentation] 結晶構造から生化学へ-X線結晶構造解析による酵素機能の解明-機能解析における問題点2012

    • Author(s)
      三上文三
    • Organizer
      第59回日本生化学会近畿支部例会シンポジウム
    • Place of Presentation
      京都大学宇治キャンパス(京都府宇治市)
    • Year and Date
      2012-05-19
    • Related Report
      2012 Annual Research Report
  • [Presentation] 結晶構造から探る食品関連酵素の機能

    • Author(s)
      三上文三
    • Organizer
      アグリバイオシンポジウム2013
    • Place of Presentation
      近畿大学農学部
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 微生物由来トランスグルタミナーゼの活性部位とプロ領域ペプチドとの相互作用

    • Author(s)
      森 光平、小林 淳、吉村 卓也、水谷 公彦、高橋 延行、星 由起子、山口 庄太郎、三上 文三
    • Organizer
      日本農芸化学会関西支部第 479 回 講演会
    • Place of Presentation
      京都府立大学
    • Related Report
      2013 Annual Research Report
  • [Presentation] X線結晶構造解析によるダイズβ-アミラーゼの反応機構の解明

    • Author(s)
      三上文三、姜有那、安達基泰、河村和広、水谷公彦、高橋延行
    • Organizer
      日本農芸化学2014年度大会
    • Place of Presentation
      明治大学生田キャンパス
    • Related Report
      2013 Annual Research Report
  • [Remarks] 応用構造生物学分野

    • URL

      http://www.structure.kais.kyoto-u.ac.jp/

    • Related Report
      2014 Annual Research Report
  • [Remarks] 京都大学農学研究科応用生命科学専攻応用構造生物学分野

    • URL

      http://www.applife.kais.kyoto-u.ac.jp/system/fck/11.pdf

    • Related Report
      2014 Annual Research Report
  • [Remarks] http://www.structure.kais.kyoto-u.ac.jp/

    • Related Report
      2013 Annual Research Report
  • [Remarks]

    • URL

      http://www.structure.kais.kyoto-u.ac.jp/

    • Related Report
      2012 Annual Research Report

URL: 

Published: 2012-04-24   Modified: 2019-07-29  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi