SOSUI pipeline

SOSUI specifications

Information


Unique identifier OMICS_07263
Name SOSUI
Interface Web user interface
Restrictions to use None
Input data A protein sequence
Output data Membrane proteins
Computer skills Basic
Stability Stable
Maintained Yes

Publications for SOSUI

SOSUI IN pipelines

 (12)
2016
PMCID: 4964579
PMID: 27464714
DOI: 10.1038/srep30542

[…] derived using clustal w with default parameters48. protein domains were predicted by the pfam protein families database49. the transmembrane domains with hydrophobic residues were predicted by the sosui algorithm50., to screen wcr active targets, 400 to 800 base pair regions of randomly selected non- redundant cdna clones were amplified using taq dna polymerase with a pair of gene specific […]

2016
PMCID: 5290667
PMID: 28197063
DOI: 10.6026/97320630012254

[…] (‹0.05 for saouhsc_02307, saouhsc_02309, saouhsc_02866, and abd31816.1) compared to proteins with expected size. this indicates that these specific hypothetical proteins may not be in the mfs., sosui calculates the average hydrophobicity of a protein. if hydrophobicity exists, the server labels that portion of the protein as a transmembrane region. table 6 details transmembrane regions […]

2016
PMCID: 5290667
PMID: 28197063
DOI: 10.6026/97320630012254

[…] the average hydrophobicity of a protein. if hydrophobicity exists, the server labels that portion of the protein as a transmembrane region. table 6 details transmembrane regions as described by the sosui server. mfs proteins typically have 11 to 13 transmembrane regions, so saouhsc_02307, saouhsc_02309, saouhsc_02620, and abd31816.1 are unlikely functioning mfs proteins because they have half […]

2016
PMCID: 5290667
PMID: 28197063
DOI: 10.6026/97320630012254

[…] and abd31816.1 are unlikely functioning mfs proteins because they have half or less of the necessary number of transmembrane regions. since glpt and lacy had 10 transmembrane regions per sosui (data not shown), it is still possible that saouhsc_02752 and abd31642.1 are related to mfs proteins based on this analysis., finally, potential mfs hypothetical proteins should have similar […]

2015
PMCID: 4641336
PMID: 26561515
DOI: 10.1186/s40793-015-0084-z

[…] the genomic sequences was completed using the ncbi prokaryotic genome annotation pipeline which was combined using best-placed reference protein set and the gene caller genemarks+. signalp [30] and sosui [31] were used to predict signal peptides and transmembrane helices. the predicted cdss were also used to search against the pfam protein family database [32]. the genbank database [33] […]

SOSUI institution(s)
Tokyo University of Agriculture and Technology, Faculty of Technology, Department of Biotechnology, Tokyo, Japan; Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology, Tokyo, Japan
SOSUI funding source(s)
This study was partly supported by a grant-in-aid for special projects in genome science from the Ministry of Education, Sports, Science and Technology.

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