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Three-dimensional pattern matching in protein structure analysis

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Combinatorial Pattern Matching (CPM 1995)

Part of the book series: Lecture Notes in Computer Science ((LNCS,volume 937))

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Abstract

Many pattern-matching problems that arise in “one dimension” in the analysis of genomic sequences have three-dimensional analogs in the analysis of protein structures. This report focuses on the identification and matching of common substructures, and treats two problems: the probing of a database of structures with a segment of a protein to identify regions from other proteins with conformations similar to that of the probe, and the determination of the maximal common “rigid subunit” in comparing alternative conformations of a single protein. Approaches based on the representation of structures in terms of lists of coordinates or as a distance matrices are compared.

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Authors and Affiliations

  1. MRC Centre, University of Cambridge Clinical School, Hills Road, CB2 2QH, Cambridge, UK

    Arthur M. Lesk

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  1. Arthur M. Lesk
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Zvi Galil Esko Ukkonen

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© 1995 Springer-Verlag Berlin Heidelberg

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Lesk, A.M. (1995). Three-dimensional pattern matching in protein structure analysis. In: Galil, Z., Ukkonen, E. (eds) Combinatorial Pattern Matching. CPM 1995. Lecture Notes in Computer Science, vol 937. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-60044-2_47

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  • DOI: https://doi.org/10.1007/3-540-60044-2_47

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-60044-2

  • Online ISBN: 978-3-540-49412-6

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