Sequence-structure alignment using a statistical analysis of core models and dynamic programming

Marcus Brunnert, Paul Fischer and Wolfgang Urfer

No 2002,61, Technical Reports from Technische Universität Dortmund, Sonderforschungsbereich 475: Komplexitätsreduktion in multivariaten Datenstrukturen

Abstract: The expanding availability of protein data enforces the application of empirical methods necessary to recognize protein structures. In this paper a sequence-structure alignment method is described and applied to various Ubiquitin-like folded Ras-binding domains. On the basis of two probability functions that evaluate similarities between the occurrence of amino-acids in the primary and secondary protein structure, different versions of simple scoring functions are proposed. The application of the program ’PLACER’ that uses a dynamic programming approach enables the search for an optimal sequence-structure alignment and the prediction of the secondary structure.

Keywords: Sequence-structure alignment; core model; dynamic programming; secondary structure prediction (search for similar items in EconPapers)
Date: 2002
References: View complete reference list from CitEc
Citations: View citations in EconPapers (1)

Downloads: (external link)
https://www.econstor.eu/bitstream/10419/77206/2/2002-61.pdf (application/pdf)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:zbw:sfb475:200261

Access Statistics for this paper

More papers in Technical Reports from Technische Universität Dortmund, Sonderforschungsbereich 475: Komplexitätsreduktion in multivariaten Datenstrukturen Contact information at EDIRC.
Bibliographic data for series maintained by ZBW - Leibniz Information Centre for Economics ().