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PMID: 15980457 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

SEARCHGTr: a program for analysis of glycosyltransferases involved in glycosylation of secondary metabolites.

Nucleic acids research ·Vol. 33 ·No. Web Server issue ·2005-07-01 ·Pages W220-5

Kamra P, Gokhale RS, Mohanty D

Abstract

SEARCHGTr is a web-based software for the analysis of glycosyltransferases (GTrs) involved in the biosynthesis of a variety of pharmaceutically important compounds like adriamycin, erythromycin, vancomycin etc. This software has been developed based on a comprehensive analysis of sequence/structural features of 102 GTrs of known specificity from 52 natural product biosynthetic gene clusters. SEARCHGTr is a powerful tool that correlates sequences of GTrs to the chemical structures of their corresponding substrates. This software indicates the donor/acceptor specificity and also identifies putative substrate binding residues. In addition, it provides interfaces to other public databases like GENBANK, SWISS-PROT, CAZY, PDB, PDBSum and PUBMED for extracting various information on GTrs homologous to the query sequence. SEARCHGTr would provide new dimension to our previously developed bioinformatics tool NRPS-PKS. Together, these tools facilitate comprehensive computational analysis of proteins involved in biosynthesis of aglycone core and its downstream glycosylations. Apart from presenting opportunities for rational design of novel natural products, these tools would assist in the identification of biosynthetic products of secondary metabolite gene clusters found in newly sequenced genomes. SEARCHGTr can be accessed at http://www.nii.res.in/searchgtr.html.

MeSH Terms
Anti-Bacterial Agents/chemistry,metabolism Binding Sites Computational Biology/methods Glycosylation Glycosyltransferases/chemistry,metabolism Internet Metabolism/genetics Protein Conformation Sequence Analysis, Protein/methods Software Substrate Specificity User-Computer Interface
Chemicals
Anti-Bacterial Agents Glycosyltransferases
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Kamra Pankaj
National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi 110067, India.
Gokhale Rajesh S
Mohanty Debasisa
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gki449
Published
2005-07-01
Pages
W220-5
Language
English
Region
England
NLM ID
0411011
PMCID
PMC1160210
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gki449 PMC Full Text View journal details
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