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PLecDom: A program for identification and analysis of plant lectin domains

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Title PLecDom: A program for identification and analysis of plant lectin domains
 
Creator Shridhar, Smriti
Chattopadhyay, Debasis
Yadav, Gitanjali
 
Subject plant lectin domains
 
Description PLecDom is a program for detection of Plant
Lectin Domains in a polypeptide or EST sequence,
followed by a classification of the identified domains
into known families. The web server is a collection
of plant lectin domain families represented by align-
ments and profile Hidden Markov Models. PLecDom
was developed after a rigorous analysis of evolu-
tionary relationships between available sequences
of lectin domains with known specificities.
Users can test their sequences for potential lectin
domains, catalog the identified domains into broad
substrate classes, estimate the extent of divergence
of new domains with existing homologs, extract
domain
boundaries
and
examine
flanking
sequences for further analysis. The high prediction
accuracy of PLecDom combined with the ease with
which it handles large scale input, enabled us to
apply the program to protein and EST data from 48
plant genome-sequencing projects in various
stages of completion. Our results represent a signif-
icant enrichment of the currently annotated plant
lectins, and highlight potential targets for biochemical characterization. The search algorithm requires
input in fasta format and is designed to process
simultaneous connection requests from multiple
users, such that huge sets of input sequences can
be scanned in a matter of seconds. PLecDom is
available at http://www.nipgr.res.in/plecdom.html.
Innovative Young Biotechnologist grant to GY by the
Department of Biotechnology, Government of India
[BT/BI/12/040/2005] and [BT/PR/5360/Agr/16/483/2004].
Funding for open access charge: USD 2670.
 
Date 2014-02-13T09:45:44Z
2014-02-13T09:45:44Z
2009
2 May 2009
 
Type Article
 
Identifier Nucl. Acids Res., 37: W452-458
http://hdl.handle.net/123456789/128
 
Language en
 
Publisher Oxford University Press