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SSEP-Domain specifications


Unique identifier OMICS_07109
Name SSEP-Domain
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained Yes

Publication for SSEP-Domain

SSEP-Domain citations


Molecular determinants archetypical to the phylum Nematoda

BMC Genomics
PMCID: 2666764
PMID: 19296854
DOI: 10.1186/1471-2164-10-114

[…] used to search against the interpro database []., the following structural information was predicted for the nf family members: secondary structure prediction by psipred [], domain architecture with ssep-domain [], detection of flexible and dynamic regions using disopred2 []. to investigate distant homology, query sequences were submitted to meta-basic [] against data sets of meta-profiles […]


Improving the performance of DomainDiscovery of protein domain boundary assignment using inter domain linker index

BMC Bioinformatics
PMCID: 1764483
PMID: 17254311
DOI: 10.1186/1471-2105-7-S5-S6

[…] properties of amino acids and predicted secondary structure analyzed with a neural network; galzitskaya & melnik [] use side chain entropy of a region to predict domain boundaries; ssep-domain [] predicts domains by combining information of secondary structure element alignments, profile-profile alignments and pattern searches; armidillo [] uses amino acid composition […]


A framework for protein structure classification and identification of novel protein structures

BMC Bioinformatics
PMCID: 1622760
PMID: 17042958
DOI: 10.1186/1471-2105-7-456

[…] a domain prediction method with query protein chains to identify the domain boundaries. then, we ran our classification method on the identified domains. for domain boundary prediction, we used the ssep-domain method [], which was shown to be very accurate in the cafasp4-dp competition []., we compared scopmap and procc using 2773 new single domain chains in scop 1.69. for this experiment, […]

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SSEP-Domain institution(s)
Practical Informatics and Bioinformatics Group, Department of Informatics, Ludwig-Maximilians-University, Munich, Germany

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