Prediction by a neural network of outer membrane beta-strand protein topology


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DIEDERICHS, Kay, Jörg FREIGANG, Stephan UMHAU, Kornelius ZETH, Jason BREED, 1998. Prediction by a neural network of outer membrane beta-strand protein topology. In: Protein Science. 7(11), pp. 2413-2420. ISSN 0961-8368. eISSN 1469-896X. Available under: doi: 10.1002/pro.5560071119

@article{Diederichs1998Predi-6574, title={Prediction by a neural network of outer membrane beta-strand protein topology}, year={1998}, doi={10.1002/pro.5560071119}, number={11}, volume={7}, issn={0961-8368}, journal={Protein Science}, pages={2413--2420}, author={Diederichs, Kay and Freigang, Jörg and Umhau, Stephan and Zeth, Kornelius and Breed, Jason} }

<rdf:RDF xmlns:dcterms="" xmlns:dc="" xmlns:rdf="" xmlns:bibo="" xmlns:dspace="" xmlns:foaf="" xmlns:void="" xmlns:xsd="" > <rdf:Description rdf:about=""> <dc:creator>Breed, Jason</dc:creator> <dc:contributor>Zeth, Kornelius</dc:contributor> <dc:contributor>Diederichs, Kay</dc:contributor> <bibo:uri rdf:resource=""/> <dc:creator>Zeth, Kornelius</dc:creator> <dc:creator>Diederichs, Kay</dc:creator> <dc:language>eng</dc:language> <dc:contributor>Umhau, Stephan</dc:contributor> <dc:date rdf:datatype="">2011-03-24T17:27:32Z</dc:date> <dcterms:title>Prediction by a neural network of outer membrane beta-strand protein topology</dcterms:title> <dc:format>application/pdf</dc:format> <dcterms:available rdf:datatype="">2011-03-24T17:27:32Z</dcterms:available> <dcterms:rights rdf:resource=""/> <foaf:homepage rdf:resource="http://localhost:8080/jspui"/> <dspace:hasBitstream rdf:resource=""/> <void:sparqlEndpoint rdf:resource="http://localhost/fuseki/dspace/sparql"/> <dc:creator>Umhau, Stephan</dc:creator> <dc:contributor>Breed, Jason</dc:contributor> <dc:creator>Freigang, Jörg</dc:creator> <dcterms:bibliographicCitation>First publ. in: Protein Science 7 (1998), pp. 2413-2420</dcterms:bibliographicCitation> <dspace:isPartOfCollection rdf:resource=""/> <dcterms:abstract xml:lang="eng">An artificial neural network (NN) was trained to predict the topology of bacterial outer membrane (OM) β-strand proteins. Specifically, the NN predicts the z-coordinate of Cα atoms in a coordinate frame with the outer membrane in the xy-plane, such that low z-values indicate periplasmic turns, medium z-values indicate transmembrane β-strands, and high z-values indicate extracellular loops. To obtain a training set, seven OM proteins (porins) with structures known to high resolution were aligned with their pores along the z-axis. The relationship between Cα z-values and topology was thereby established. To predict the topology of other OM proteins, all seven porins were used for the training set. Z-values (topologies) were predicted for two porins with hitherto unknown structure and for OM proteins not belonging to the porin family, all with insignificant sequence homology to the training set. The results of topology prediction compare favorably with experimental topology data.</dcterms:abstract> <dcterms:issued>1998</dcterms:issued> <dc:rights>terms-of-use</dc:rights> <dcterms:hasPart rdf:resource=""/> <dc:contributor>Freigang, Jörg</dc:contributor> <dcterms:isPartOf rdf:resource=""/> </rdf:Description> </rdf:RDF>

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