Recently we have constructed a database-the Enzyme-Reaction Database-which links a chemical structure to amino acid sequences of enzymes that recognize the chemical structure as their ligand. The total number of enzymes registered in the database is 1103 with 6668 NBRF-PIR entry codes and 1756 chemical compounds. The chemical structures and chemical names for 842 compounds are registered in the Chemical-Structure Database on the MACCS system. For each enzyme, the sequences were divided into clusters, and multiply aligned in each cluster to extract a conserved sequence. A total of 158 781 five-residue-long fragments were constructed from 433 conserved sequences and compared among different clusters of different enzymes. One of these motifs shared by different enzymes S-G-G-L-D. The motif was conserved in both argininosuccinate synthase (EC 184.108.40.206) and asparagine synthase (glutamine-hydrolysing) (EC 220.127.116.11). This result showed that the database was useful for the analysis of the relationship between chemical structures and amino acid sequence motifs.
All Science Journal Classification (ASJC) codes
- Statistics and Probability
- Molecular Biology
- Computer Science Applications
- Computational Theory and Mathematics
- Computational Mathematics