MELDB: A database for microbial esterases and lipases

Ho Young Kang, Jihyun F. Kim, Myung Hee Kim, Seung Hwan Park, Tae Kwang Oh, Cheol Goo Hur

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

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.

Original languageEnglish
Pages (from-to)2736-2740
Number of pages5
JournalFEBS Letters
Volume580
Issue number11
DOIs
Publication statusPublished - 2006 May 15

Fingerprint

Esterases
Lipase
Databases
Protein Databases
Cluster Analysis
Noise
Industry
Proteins
Clustering algorithms
Joining
Enzymes
solysime

All Science Journal Classification (ASJC) codes

  • Biophysics
  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Genetics
  • Cell Biology

Cite this

Kang, H. Y., Kim, J. F., Kim, M. H., Park, S. H., Oh, T. K., & Hur, C. G. (2006). MELDB: A database for microbial esterases and lipases. FEBS Letters, 580(11), 2736-2740. https://doi.org/10.1016/j.febslet.2006.04.034
Kang, Ho Young ; Kim, Jihyun F. ; Kim, Myung Hee ; Park, Seung Hwan ; Oh, Tae Kwang ; Hur, Cheol Goo. / MELDB : A database for microbial esterases and lipases. In: FEBS Letters. 2006 ; Vol. 580, No. 11. pp. 2736-2740.
@article{1628e786f1544bc086b4b3387112dd3e,
title = "MELDB: A database for microbial esterases and lipases",
abstract = "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.",
author = "Kang, {Ho Young} and Kim, {Jihyun F.} and Kim, {Myung Hee} and Park, {Seung Hwan} and Oh, {Tae Kwang} and Hur, {Cheol Goo}",
year = "2006",
month = "5",
day = "15",
doi = "10.1016/j.febslet.2006.04.034",
language = "English",
volume = "580",
pages = "2736--2740",
journal = "FEBS Letters",
issn = "0014-5793",
publisher = "Elsevier",
number = "11",

}

Kang, HY, Kim, JF, Kim, MH, Park, SH, Oh, TK & Hur, CG 2006, 'MELDB: A database for microbial esterases and lipases', FEBS Letters, vol. 580, no. 11, pp. 2736-2740. https://doi.org/10.1016/j.febslet.2006.04.034

MELDB : A database for microbial esterases and lipases. / Kang, Ho Young; Kim, Jihyun F.; Kim, Myung Hee; Park, Seung Hwan; Oh, Tae Kwang; Hur, Cheol Goo.

In: FEBS Letters, Vol. 580, No. 11, 15.05.2006, p. 2736-2740.

Research output: Contribution to journalArticle

TY - JOUR

T1 - MELDB

T2 - A database for microbial esterases and lipases

AU - Kang, Ho Young

AU - Kim, Jihyun F.

AU - Kim, Myung Hee

AU - Park, Seung Hwan

AU - Oh, Tae Kwang

AU - Hur, Cheol Goo

PY - 2006/5/15

Y1 - 2006/5/15

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=33646199394&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33646199394&partnerID=8YFLogxK

U2 - 10.1016/j.febslet.2006.04.034

DO - 10.1016/j.febslet.2006.04.034

M3 - Article

C2 - 16647704

AN - SCOPUS:33646199394

VL - 580

SP - 2736

EP - 2740

JO - FEBS Letters

JF - FEBS Letters

SN - 0014-5793

IS - 11

ER -