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LRRfinder specifications

Information


Unique identifier OMICS_03531
Name LRRfinder
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for LRRfinder

LRRfinder citations

 (24)
library_books

Characterization of the peripheral blood transcriptome and adaptive evolution of the MHC I and TLR gene families in the wolf (Canis lupus)

2017
BMC Genomics
PMCID: 5545864
PMID: 28784091
DOI: 10.1186/s12864-017-3983-0

[…] nt amino acid sequences. We assessed the functional significance of positively selected sites by mapping these sites to the structural domains of each protein, which were predicted using the software LRRfinder [] with upper and lower boundaries fixed at 95% and 80%, respectively. […]

library_books

Evolution of toll like receptors in the context of terrestrial ungulates and cetaceans diversification

2017
BMC Evol Biol
PMCID: 5314619
PMID: 28209121
DOI: 10.1186/s12862-017-0901-7

[…] ed domain families associated with wide variety of nuclear, signaling and extracellular proteins []. The structural organization of TLR domains in the studied TLRs was analyzed using SMART. Web based LRRfinder is derived from a large database of unique, naturally occurring LRRs (tLRRdb) allowing the identification of not only highly conserved LRR sequences, but also those which uniquely deviate fr […]

library_books

Identification of a Differentially Expressed TIR NBS LRR Gene in a Major QTL Associated to Leaf Rust Resistance in Salix

2016
PLoS One
PMCID: 5176316
PMID: 28002449
DOI: 10.1371/journal.pone.0168776

[…] ntaining signature of resistance gene domains were further analysed. Predicted domains were identified using coiled-coil prediction (Andrei Lupas, Princetown University, Princetown, New Jersey, USA), LRRfinder (Victoria Offord, Royal Veterinary College, London, Great Britain) and CD-Search (Aron Marchler-Bauer and Stephen H. Bryant, NCBI, Bethesda, Maryland, USA). Transposons were identified using […]

library_books

Comparative venomics of Psyttalia lounsburyi and P. concolor, two olive fruit fly parasitoids: a hypothetical role for a GH1 β glucosidase

2016
Sci Rep
PMCID: 5078806
PMID: 27779241
DOI: 10.1038/srep35873

[…] ) and CD-Search against Conserved Domain Database (CDD) at NCBI (http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml). Identification of leucine-rich repeats (LRR) in protein sequences was done using LRRfinder (http://www.lrrfinder.com/).Search for DUF4803 domain-containing, GH1 β-glucosidase and protein disulfide isomerase sequences was performed using blastp at NCBI (http://www.ncbi.nlm.nih.gov/ […]

library_books

Ectodomain Architecture Affects Sequence and Functional Evolution of Vertebrate Toll like Receptors

2016
Sci Rep
PMCID: 4877655
PMID: 27216145
DOI: 10.1038/srep26705

[…] signal peptide, ectodomains, transmembrane region, and intracellular TIR domains were predicted by SignalP, SMART, and TMHMM. The delimitation of each LRR module in the TLR ectodomains was defined by LRRfinder (). The structural information for the TLR ectodomains was used for the calibration of LRR module prediction. The structural element delimitations of these representative TLR sequences were […]

library_books

A Novel Toll Like Receptor (TLR) Influences Compatibility between the Gastropod Biomphalaria glabrata, and the Digenean Trematode Schistosoma mansoni

2016
PLoS Pathog
PMCID: 4807771
PMID: 27015424
DOI: 10.1371/journal.ppat.1005513

[…] sequence of BgTLR is composed of 3546 nucleotides. The open reading frame predicts a protein of 1181 amino acid residues. Its ectodomain contains 23 LRR motifs spanning residues 3–725 as predicted by LRRfinder [] and ScanProsite tools []. The TIR domain is encoded by residues 899–1037, preceded by a transmembrane region on residues 849–870 (). There is no identifiable signal peptide in BgTLR based […]

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LRRfinder institution(s)
Molecular Immunology Group, Department of Pathology and Infectious Diseases, Royal Veterinary College, Hawkshead Campus, Hawkshead Lane, North Mymms, Hertfordshire, UK

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