Title:
SYNTHETIC PATHWAY CONSTRUCTING EQUIPMENT, SYNTHETIC PATHWAY CONSTRUCTING METHOD, SYNTHETIC PATHWAY CONSTRUCTING PROGRAM, AND PROCESSES FOR MANUFACTURING 3-HYDROXYPROPIONIC ACID, CROTONYL ALCOHOL AND BUTADIENE
Document Type and Number:
WIPO Patent Application WO/2012/081723
Kind Code:
A1
Abstract:
In order to construct a synthetic pathway of a compound without any limitation on chemical transformation rules, this synthetic pathway constructing equipment is provided with: a conversion section for converting the chemical structures of compounds to universal features (UFs); a calculation section for setting pairs of compounds and subtracting the UF of one of the compounds constituting each pair from the UF of the other to calculate the difference features (DFs); a determination section for comparing DFs of known-reaction pairs of compounds, the reactions related to the known-reaction pairs being known, with DFs of unknown-reaction pairs of compounds, the reactions related to the unknown-reaction pairs being unknown, and thus determining imaginary reactions, which are unknown reactions related to unknown-reaction pairs of compounds that each have the same DF as that of any of the known-reaction pairs of compounds; a synthetic pathway producing section for producing synthetic pathways of compounds using nodes representing compounds and edges representing known reactions and imaginary reactions; and a selection section for selecting synthetic pathways from starting compounds to desired compounds among the synthetic pathways produced above.
Inventors:
ARAKI MICHIHIRO
MIYAOKU KOHEI
TANIGUCHI TAKESHI
MIYAOKU KOHEI
TANIGUCHI TAKESHI
Application Number:
PCT/JP2011/079378
Publication Date:
June 21, 2012
Filing Date:
December 19, 2011
Export Citation:
Assignee:
MITSUBISHI CHEM CORP (JP)
ARAKI MICHIHIRO
MIYAOKU KOHEI
TANIGUCHI TAKESHI
ARAKI MICHIHIRO
MIYAOKU KOHEI
TANIGUCHI TAKESHI
International Classes:
C12M1/00; B01J19/00; C07B61/00; C07C51/38; C07C53/02; C07C59/01; C12P7/40; C12P7/42; C12P7/46; C12N15/09
Domestic Patent References:
| WO2006022664A2 | 2006-03-02 | |||
| WO2010099201A1 | 2010-09-02 | |||
| WO2008115840A2 | 2008-09-25 |
Foreign References:
| JP2008507970A | 2008-03-21 | |||
| JP2001354607A | 2001-12-25 | |||
| US5356812A | 1994-10-18 | |||
| US2469701A | 1949-05-10 |
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YUGO SHIMIZU ET AL.: "Michi no Koso Hanno Yosoku ni Muketa Ippanka Hanno Pattern no Kaihatsu", JOURNAL OF JAPANESE BIOCHEMICAL SOCIETY, 2008, pages 4P-0960, XP008170977
See also references of EP 2653529A4
AYOUN CHO: "Prediction of novel synthetic pathways for the production of desired chemicals", BMC SYSTEMS BIOLOGY, vol. 4, 2010, pages 35, XP021082124, DOI: doi:10.1186/1752-0509-4-35
CHRISTOPHER S. HENRY: "Discovery and analysis of novel metabolic pathways for the biosynthesis of industrial chemicals: 3-hydroxypropanoate", BIOTECHNOLOGY AND BIOENGINEERING
BIOPHYS. J., vol. 92, no. 7, 2007, pages 1792 - 1805
BIOTECHNOLOGY AND BIOENGINEERING, vol. 42, 1993, pages 59 - 73
J. BIOL. CHEM., vol. 243, no. 10, 1968, pages 2486 - 2493
BIOCHIM. BIOPHYS. ACTA., vol. 50, 1961, pages 147 - 52
J. BIOL. CHEM., vol. 234, 1959, pages 1666 - 71
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J BIOL CHEM., 2003, pages 48674 - 48683
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YOUNGLESON, S., J BAC., vol. 171, 1989, pages 6800 - 6807
DUNCOMBE G. ET AL., ARCH BIOCHEM BIOPHYS., vol. 176, 1976, pages 159 - 170
YANG, S.; SCHULZ H., J. BIOL. CHEM., vol. 258, 1983, pages 9780 - 9785
OBRIEN,W., J. BAC., vol. 132, 1977, pages 532 - 540
LAUVERGEAT, V, PHYTOCHEMISTRY, vol. 57, no. 7, 2001, pages 1187 - 95
LI, L. ET AL., PLANT CELL PHYSIOL., vol. 46, no. 7, 2005, pages 1073 - 82
POWLOWSKI J. ET AL., J. BACTERIOL., vol. 175, 1993, pages 377 - 385
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ALNOUTI, Y; KLAASSEN, CD., TOXICOL SCI., vol. 101, no. 1, 2008, pages 51 - 64
REISER, S.; SOMERVILLE, C., J. BACTERIOL., vol. 179, 1997, pages 2969 - 2975
LESKOVAC V. ET AL., FEMS YEAST RES., vol. 2, no. 4, 2002, pages 481 - 94
IIJIMA, Y. ET AL., ARCH BIOCHEM BIOPHYS., vol. 448, no. 1-2, 2006, pages 141 - 149
YOUN, B. ET AL., ORG. BIOMOL. CHEM., vol. 4, 2006, pages 1687 - 1697
KAZUOKA, T. ET AL., EXTREMOPHILES, vol. 11, no. 2, 2007, pages 257 - 67
KINOSHITA, S. ET AL., APPL. MICROBIOL. BIOTECHNOL., vol. 22, 1985, pages 249 - 254
OTSUKA, K, J. GEN. APPL. MICROBIOL., vol. 4, no. 4, 1958, pages 211 - 215
FONTAINE FR ET AL., CHEM. RES. TOXICOL., vol. 15, no. 8, 2002, pages 1051 - 1058
AUSUBEL ET AL., CURRENT PROTOCOL IN MOLECULAR BIOLOGY, 2003
SAMBROOK ET AL.: "Molecular Cloning: A Laboratory Manual", 2001
"Seibutsu Kogaku Jikkensho", 2002, THE SOCIETY FOR BIOTECHNOLOGY
VOGEL, H. ET AL.: "Fermentation and Biochemical Engineering Handbook", 2007
SAMBROOK: "Molecular Cloning: A Laboratory Manual", 2001
IND. ENG. CHEM., vol. 61, no. 6, 1969, pages 30 - 33
DAICHI SHIGEMIZU ET AL.: "KEGG DRUG Structure Map kara Kagaku Henkan Pattern no Chushutsu", JOURNAL OF JAPANESE BIOCHEMICAL SOCIETY, 2007, pages 4P-1203, XP008170979
YUGO SHIMIZU ET AL.: "Michi no Koso Hanno Yosoku ni Muketa Ippanka Hanno Pattern no Kaihatsu", JOURNAL OF JAPANESE BIOCHEMICAL SOCIETY, 2008, pages 4P-0960, XP008170977
See also references of EP 2653529A4
AYOUN CHO: "Prediction of novel synthetic pathways for the production of desired chemicals", BMC SYSTEMS BIOLOGY, vol. 4, 2010, pages 35, XP021082124, DOI: doi:10.1186/1752-0509-4-35
CHRISTOPHER S. HENRY: "Discovery and analysis of novel metabolic pathways for the biosynthesis of industrial chemicals: 3-hydroxypropanoate", BIOTECHNOLOGY AND BIOENGINEERING
BIOPHYS. J., vol. 92, no. 7, 2007, pages 1792 - 1805
BIOTECHNOLOGY AND BIOENGINEERING, vol. 42, 1993, pages 59 - 73
J. BIOL. CHEM., vol. 243, no. 10, 1968, pages 2486 - 2493
BIOCHIM. BIOPHYS. ACTA., vol. 50, 1961, pages 147 - 52
J. BIOL. CHEM., vol. 234, 1959, pages 1666 - 71
FEBS LETT., vol. 195, 1986, pages 43 - 47
ARCH BIOCHEM BIOPHYS., vol. 288, 1991, pages 22 - 28
J BIOL CHEM., 2003, pages 48674 - 48683
BIOCHEM. J., vol. 115, 1969, pages 977 - 83
YOUNGLESON, S., J BAC., vol. 171, 1989, pages 6800 - 6807
DUNCOMBE G. ET AL., ARCH BIOCHEM BIOPHYS., vol. 176, 1976, pages 159 - 170
YANG, S.; SCHULZ H., J. BIOL. CHEM., vol. 258, 1983, pages 9780 - 9785
OBRIEN,W., J. BAC., vol. 132, 1977, pages 532 - 540
LAUVERGEAT, V, PHYTOCHEMISTRY, vol. 57, no. 7, 2001, pages 1187 - 95
LI, L. ET AL., PLANT CELL PHYSIOL., vol. 46, no. 7, 2005, pages 1073 - 82
POWLOWSKI J. ET AL., J. BACTERIOL., vol. 175, 1993, pages 377 - 385
LAU, P ET AL., GENE, vol. 146, no. 1, 1994, pages 7 - 13
ALNOUTI, Y; KLAASSEN, CD., TOXICOL SCI., vol. 101, no. 1, 2008, pages 51 - 64
REISER, S.; SOMERVILLE, C., J. BACTERIOL., vol. 179, 1997, pages 2969 - 2975
LESKOVAC V. ET AL., FEMS YEAST RES., vol. 2, no. 4, 2002, pages 481 - 94
IIJIMA, Y. ET AL., ARCH BIOCHEM BIOPHYS., vol. 448, no. 1-2, 2006, pages 141 - 149
YOUN, B. ET AL., ORG. BIOMOL. CHEM., vol. 4, 2006, pages 1687 - 1697
KAZUOKA, T. ET AL., EXTREMOPHILES, vol. 11, no. 2, 2007, pages 257 - 67
KINOSHITA, S. ET AL., APPL. MICROBIOL. BIOTECHNOL., vol. 22, 1985, pages 249 - 254
OTSUKA, K, J. GEN. APPL. MICROBIOL., vol. 4, no. 4, 1958, pages 211 - 215
FONTAINE FR ET AL., CHEM. RES. TOXICOL., vol. 15, no. 8, 2002, pages 1051 - 1058
AUSUBEL ET AL., CURRENT PROTOCOL IN MOLECULAR BIOLOGY, 2003
SAMBROOK ET AL.: "Molecular Cloning: A Laboratory Manual", 2001
"Seibutsu Kogaku Jikkensho", 2002, THE SOCIETY FOR BIOTECHNOLOGY
VOGEL, H. ET AL.: "Fermentation and Biochemical Engineering Handbook", 2007
SAMBROOK: "Molecular Cloning: A Laboratory Manual", 2001
IND. ENG. CHEM., vol. 61, no. 6, 1969, pages 30 - 33
Attorney, Agent or Firm:
KAWAGUCHI, Yoshiyuki et al. (JP)
Yoshiyuki Kawaguchi (JP)
Yoshiyuki Kawaguchi (JP)
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