PilFind specifications

Information


Unique identifier OMICS_29181
Name PilFind
Interface Web user interface
Restrictions to use None
Input format FASTA
Programming languages Perl
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

Maintainer


  • person_outline Mechthild Pohlschroder <>

Publication for PilFind

PilFind in publications

 (12)
PMCID: 5481317
PMID: 28690595
DOI: 10.3389/fmicb.2017.01134

[…] to archetypic mono- and diderm cell envelopes, revealed a monoderm cell envelope architecture consistent with other chloroflexi (figure ). the genome annotation and specialized searches using the pilfind program () did not reveal any genes associated with flagella, fimbriae or pili, suggesting a non-motile lifestyle. putative genes associated with spore coat polysaccharide biosynthesis […]

PMCID: 5397411
PMID: 28473967
DOI: 10.3389/fcimb.2017.00139

[…] the downstream open reading frames (orfs) between vpar_rs05465—5435 have features that are highly reminiscent of type iv prepilins (figure ). the orfs in this locus were further analyzed using the pilfind webserver (http://signalfind.org/pilfind.html) (imam et al., ) and a canonical type iv prepilin leader sequence was detected in vpar_rs05465. this orf is also located directly adjacent […]

PMCID: 5174107
PMID: 28066394
DOI: 10.3389/fmicb.2016.02080

[…] the genetic relationships, and conserved structures and sequences that were obtained were used to predict the evolution of the pilins. homologous genes that encode conductive pilin were found using pilfind and cluster. sequence characteristics and protein tertiary structures were analyzed with mafft and quark, respectively. the origin of conductive pilins was explored by building a phylogenetic […]

PMCID: 5131608
PMID: 27612581
DOI: 10.1016/j.jsb.2016.08.006

[…] 5g25 (tt121836-123), 5g23 (tt121933-236, p21 form), 5g24 (tt121933-236, c2 form)., we identified a cluster of type iv pilin-like genes within the t. thermophilus hb8 genome, using the program pilfind (). type iv pilins are highly diverse in sequence, with the exception of the n-terminal helix, which is hydrophobic and contains a highly conserved glu or asp residue at position 5 (). […]

PMCID: 5030696
PMID: 27058503
DOI: 10.1038/ismej.2016.43

[…] lipopolysaccharides (see )., none of the hyd24-12 genomes encode any flagella-related proteins, suggesting limited motility. however, genes associated with type iv pili were identified using the pilfind algorithm (see ) (). these pili enable the bacteria to generate surface-associated twitching motility. this allows them to move effectively through environments that contain shear-thinning […]


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PilFind institution(s)
Department of Biology and the Graduate Program in Genomics and Computational Biology, University of Pennsylvania, Philadelphia, PA, USA
PilFind funding source(s)
Supported by the National Science Foundation (MCB02-39215) and the National Institutes of Health (R01-AI05815).

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