Computational analysis of human proteins addressing the relationship between intrinsic disorder and alternative splicing

• Project/Area Number: 19310133
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Applied genomics
• Research Institution: Maebashi Institute of Technology
• Principal Investigator: NISHIKAWA Ken Maebashi Institute of Technology, 工学部・生命情報学科, 教授 (10093288)
• Co-Investigator(Kenkyū-buntansha): FUKUCHI Satoshi 国立遺伝学研究所, 助教 (70360336)
• Project Period (FY): 2007 – 2009
• Project Status: Completed (Fiscal Year 2009)
• Budget Amount: ¥20,280,000 (Direct Cost: ¥15,600,000、Indirect Cost: ¥4,680,000); Fiscal Year 2009: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000); Fiscal Year 2008: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000); Fiscal Year 2007: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000)
• Keywords: 情報解析 / 天然変性タンパク質 / スプライシング / 真核生物 / ゲノム / 構造ドメイン / 不規則領域 / 構造未知ドメイン / 細胞内局在 / 天然タンパク質 / 転写因子 / 膜タンパク質

Research Abstract

For all human proteins encoded on the genome, we have succeeded to classify protein molecules into structured or intrinsically disordered (ID) regions using the method we developed in this project. As a result, we revealed the total fractions of ordered/disordered regions of human proteins at a first time. Analyzing locations of alternative splicing (AS) data along the protein sequence, we have also revealed that AS events occur in proportion to the fraction of ID regions of proteins.

Research Products

• [Journal Article] 天然変性タンパク質とは何か? (2009)
  • Author(s): 西川建
  • Journal Title: 生物物理 Vol.49 Pages: 4-10
  • NAID: 110007044740
  • Peer Reviewed
• [Journal Article] The GTOP database in 2009: updated content and novel features to expand and deepen insights into protein structures and functions. (2009)
  • Author(s): Fukuchi, S., Homma, K., Sakamoto, S., Sugawara, H., Tateno, Y., Gojobori, T., Nishikawa, K.
  • Journal Title: Nucl. Acids Res. 37
• [Journal Article] Development of an accurate classification system of proteins into structured and unstructured regions that uncovers novel structural domains: Its application to human transcription factors. (2009)
  • Author(s): Fukuchi, S., Homma, K., Minezaki, Y., Gojobori, T., Nishikawa, K.
  • Journal Title: BMC Struct. Biology Pages: 1-13
• [Journal Article] Natively unfolded proteins: an overview. (2009)
  • Author(s): Nishikawa, K.
  • Journal Title: Biophysics 5 Pages: 53-58
  • NAID: 130000119936
• [Journal Article] Development of an accurate classification system of proteins into stru ctured and unstructured regions that uncovers novel structural domains : Its application to human transcription factors (2009)
  • Author(s): S.Fukuchi, K.Homma, Y.Minezaki, T.Gojobori, K.Nishikawa
  • Journal Title: BMC Structural Biology 9:26 Pages: 1-13
  • Peer Reviewed
• [Journal Article] Natively unfolded proteins : An overview (2009)
  • Author(s): K.Nishikawa
  • Journal Title: Biophysics 5 Pages: 53-58
  • NAID: 130000119936
  • Peer Reviewed
• [Journal Article] The GTOP database in 2009 : updated content and novel features to expand and deepen insights into protein structures and functions (2009)
  • Author(s): S. Fukuchi, et al.
  • Journal Title: Nucleic Acids Res. 36
  • Peer Reviewed
• [Journal Article] Development of an accurate classification system of proteins into structured and unstructured regions that uncovers novel structural domains : Its application to human transcription factors (2009)
  • Author(s): S. Fukuchi, et al.
  • Journal Title: BMC Structural Biology 9(in press)
  • Peer Reviewed
• [Journal Article] 天然変性タンパク質とは何か? (2009)
  • Author(s): 西川 建
  • Journal Title: 生物物理 49 Pages: 4-10
  • NAID: 110007044740
  • Peer Reviewed
• [Journal Article] Intrinsically disordered regions of human plasma membrane proteins preferentially occur in the cytoplasmic segment. (2007)
  • Author(s): Minezaki, Y., Homma, K., Nishikawa, K.
  • Journal Title: J. Mol. Biol. 368 Pages: 902-913
• [Journal Article] Intrinsically disordered regions of human plasma membrane proteins preferentially occur in the cytoplasmic segment (2007)
  • Author(s): Y. Minezaki, et. al.
  • Journal Title: J. Molecular Biology 368 Pages: 902-913
  • Peer Reviewed
• [Presentation] Development of an order/disorder assignment method for protein molecules and its application to the human proteome (2010)
  • Author(s): K. Nishikawa
  • Organizer: PepCon-2010
  • Place of Presentation: Beijing, China
• [Presentation] ヒト全タンパク質の未知領域を対象とした構造予測 (2009)
  • Author(s): 富井健太郎、福地佐斗志、西川建
  • Organizer: 第9回日本蛋白質科学会年会
  • Place of Presentation: 熊本市
  • Year and Date: 2009-05-21
• [Presentation] ミトコンドリア蛋白質は天然変性領域をもつか? (2009)
  • Author(s): 細田和男、福地佐斗志、西川建
  • Organizer: 第9回日本蛋白質科学会年会
  • Place of Presentation: 熊本市
  • Year and Date: 2009-05-21
• [Presentation] 天然変性タンパク質のゲノム情報解析 (2009)
  • Author(s): 西川建
  • Organizer: 第9回日本蛋白質科学会年会
  • Place of Presentation: 熊本市
  • Year and Date: 2009-05-20
• [Presentation] 天然変性タンパク質のゲノム情報解析 (2009)
  • Author(s): 西川建
  • Organizer: 第9回日本蛋白質科学会
  • Place of Presentation: 熊本
• [Presentation] ヒトタンパク質の構造ドメイン・天然変性領域への区分 (2008)
  • Author(s): 福地佐斗志, 細田和男, 西川 建
  • Organizer: 第31回日本分子生物学会年会
  • Place of Presentation: 神戸
  • Year and Date: 2008-12-12
• [Presentation] 天然変性蛋白質の特性:情報解析からわかったこと (2008)
  • Author(s): 西川建
  • Organizer: 第8回日本蛋白質科学会
  • Place of Presentation: 東京
• [Presentation] ヒト・タンパク質の構造ドメイン/天然変性領域への区分 (2008)
  • Author(s): 福地佐斗志, 細田和男, 西川建
  • Organizer: 第31回日本分子生物学
  • Place of Presentation: 神戸
• [Presentation] Intrinsic disorder of membrane proteins in the human proteome (2007)
  • Author(s): K. Nishikawa, Y. Minezaki
  • Organizer: The 21st Symposium of The Protein Society
  • Place of Presentation: ボストン
  • Year and Date: 2007-07-23
• [Remarks] 研究成果データベースDICHOT
  • URL: http://spock.genes.nig.ac.jp/~genome/DICHOT/