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The MetaCyc Database.

Peter D Karp1, Monica Riley, Suzanne M Paley

  • 1Bioinformatics Research Group, SRI International, 333 Ravenswood Avenue EK207, Menlo Park, CA 94025, USA. pkarp@ai.sri.com

Nucleic Acids Research
|December 26, 2001
PubMed
Summary
This summary is machine-generated.

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MetaCyc is a comprehensive metabolic pathway database detailing 445 pathways and 1115 enzymes across 158 organisms. This review-level resource integrates experimental data with extensive literature, aiding genomic analysis and metabolic engineering.

Area of Science:

  • Bioinformatics
  • Metabolic Engineering
  • Biochemistry

Background:

  • The MetaCyc database compiles experimentally verified metabolic pathways and enzymes.
  • It integrates information from multiple scientific literature sources, offering a review-level resource.
  • Pathways are annotated with the specific organisms in which they occur, based on cited literature.

Purpose of the Study:

  • To present the MetaCyc database, a curated collection of metabolic pathways and enzymes.
  • To highlight the database's utility in various applications, including genomic analysis and education.
  • To provide access details for the MetaCyc database and its associated tools.

Main Methods:

  • Compilation of experimentally determined metabolic pathways from scientific literature.

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  • Integration of enzyme data and organism-specific pathway occurrences.
  • Curation of extensive commentary and literature citations for each entry.

    • Main Results:

    • MetaCyc currently describes 445 metabolic pathways and 1115 enzymes.
    • The database covers 158 different organisms.
    • Information is presented with detailed commentary and literature references.

    Conclusions:

    • MetaCyc serves as a valuable resource for pathway analysis of genomes.
    • The database supports applications in metabolic engineering and biochemistry education.
    • MetaCyc is accessible online and available for local installation.