DSD--an integrated, web-accessible database of Dehydrogenase Enzyme Stereospecificities

BMC Bioinformatics. 2005 Nov 30;6:283. doi: 10.1186/1471-2105-6-283.

Abstract

Background: Dehydrogenase enzymes belong to the oxidoreductase class and utilise the coenzymes NAD and NADP. Stereo-selectivity is focused on the C4 hydrogen atoms of the nicotinamide ring of NAD(P). Depending upon which hydrogen is transferred at the C4 location, the enzyme is designated as A or B stereospecific.

Description: The Dehydrogenase Stereospecificity Database v1.0 (DSD) provides a compilation of enzyme stereochemical data, as sourced from the primary literature, in the form of a web-accessible database. There are two search engines, a menu driven search and a BLAST search. The entries are also linked to several external databases, including the NCBI and the Protein Data Bank, providing wide background information. The database is freely available online at: http://www.jenner.ac.uk/DSD/.

Conclusion: DSD is a unique compilation available on-line for the first time which provides a key resource for the comparative analysis of reductase hydrogen transfer stereospecificity. As databases increasingly form the backbone of science, largely complete databases such as DSD, are a vital addition.

MeSH terms

  • Computational Biology / methods*
  • Databases, Factual
  • Databases, Nucleic Acid
  • Databases, Protein*
  • Enzymes / chemistry
  • Hydrogen / chemistry
  • Information Services
  • Information Storage and Retrieval
  • Internet
  • Oxidoreductases / chemistry*
  • Oxidoreductases / genetics*
  • Protein Folding
  • Proteins / chemistry
  • Stereoisomerism
  • Substrate Specificity

Substances

  • Enzymes
  • Proteins
  • Hydrogen
  • Oxidoreductases