MELDB is a comprehensive protein database of microbial esterases and lipases which are hydrolytic enzymes important in the modern industry. Proteins in MELDB are clustered into groups according to their sequence similarities based on a local pairwise alignment algorithm and a graph clustering algorithm (TribeMCL). This differs from traditional approaches that use global pairwise alignment and joining methods. Our procedure was able to reduce the noise caused by dubious alignment in the distantly related or unrelated regions in the sequences. In the database, 883 esterase and lipase sequences derived from microbial sources are deposited and conserved parts of each protein are identified. HMM profiles of each cluster were generated to classify unknown sequences. Contents of the database can be keyword-searched and query sequences can be aligned to sequence profiles and sequences themselves.
Bibliographical noteFunding Information:
We thank Hyeon-Su Ro for helpful comments on esterases and lipases, Sung-Ho Yoon for critically reading the manuscript, and Doil Choi for heartful support to the project. This project is supported from the 21C Frontier Microbial Genomics and Applications Center Program, Ministry of Science and Technology, Republic of Korea.
All Science Journal Classification (ASJC) codes
- Structural Biology
- Molecular Biology
- Cell Biology