TBBpred statistics

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TBBpred specifications

Information


Unique identifier OMICS_06650
Name TBBpred
Alternative name Transmembrane Beta Barrel prediction
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Information


Unique identifier OMICS_06650
Name TBBpred
Alternative name Transmembrane Beta Barrel prediction
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for Transmembrane Beta Barrel prediction

TBBpred in pipelines

 (2)
2012
PMCID: 3385185
PMID: 22754227
DOI: 10.4103/0971-6866.96659

[…] of csth presents in protein data bank.[], servers: secondary structure of proteins predicted by phd, sable, and gor 4 servers.[] signalp3.0 server detected signal sequence of oipa and csth.[] tbbpred, prodiv-tmhmm, and tmrpres2d servers used for transmembrane topology prediction in bilayer lipid and external loops of oipa. cph models and phyre servers applied for finding of homology […]

2012
PMCID: 3385185
PMID: 22754227
DOI: 10.4103/0971-6866.96659

[…] of csth subunit of eschierchia coli cs3 pilli for bacterial surface display., databases: national center for biotechnology institute and protein data bank. servers: phd, sable, gor 4, signalp3.0, tbbpred, prodiv-tmhmm, tmrpres2d, cph models, phyre, getarea, vadar, pep state and pep window. software: swiss pdb viewer and discovery studio., in silico prediction of exposure amino acid sequences […]


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TBBpred in publications

 (4)
PMCID: 4287609
PMID: 25569427
DOI: 10.1371/journal.ppat.1004592

[…] to be secreted by a two-step secretion pathway found in both species and not yet identified. indeed, according to their domains organization and the lack of β-barrel structure prediction (using tbbpred server and hmm-tm server ), mafb toxins do not belong to the autotransporters family. besides, secreted proteins known to be targeted to a tpsb transporter of two-partners systems exhibit […]

PMCID: 3385185
PMID: 22754227
DOI: 10.4103/0971-6866.96659

[…] of csth subunit of eschierchia coli cs3 pilli for bacterial surface display., databases: national center for biotechnology institute and protein data bank. servers: phd, sable, gor 4, signalp3.0, tbbpred, prodiv-tmhmm, tmrpres2d, cph models, phyre, getarea, vadar, pep state and pep window. software: swiss pdb viewer and discovery studio., in silico prediction of exposure amino acid sequences […]

PMCID: 3273162
PMID: 22155732
DOI: 10.1093/gbe/evr130

[…] were obtained by basic blast tools (e.g., blastx) or genscan (http://genes.mit.edu/genscan.html [last accessed 2011 dec 18]). transmembrane β-strands in the analyzed sequences were identified by tbbpred (http://www.imtech.res.in/raghava/tbbpred/ [last accessed 2011 dec 18], ) and tmbeta-net (http://psfs.cbrc.jp/tmbeta-net/ [last accessed 2011 dec 18], ). the prediction of protein domains […]

PMCID: 3072342
PMID: 21414186
DOI: 10.1186/1471-2105-12-76

[…] output type. many omp predictors such as dd, wed, wed_hfs, nn_aac, tmb-hunt and bomp were limited to distinguish omps and non-omps, while a few omp predictors (e.g., pred-tmbb [,], tmbeta-net [], tbbpred [] and proftmb []) were also able to detect transmembrane β-strand regions in query sequences. the existing predictors could also be classified according to whether they use sequence […]


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TBBpred institution(s)
Institute of Microbial Technology, Chandigarh, India

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