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  • 1
    Electronic Resource
    Electronic Resource
    Molecular anatomy: Phyletic relationships derived from three-dimensional structures of proteins (1990)
    Springer
    Journal of molecular evolution 30 (1990), S. 43-59 
    Details
    ISSN: 1432-1432
    Keywords: Phyletic trees from x-ray crystal structures ; Sequences ; Globins ; Cytochromes ; Immunoglobulins ; Serine proteinases ; Eye-lens gamma crystallins ; Dinucleotide-binding proteins
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary A distance measure that reflects the dissimilarity among structures has been developed on the basis of the three-dimensional structures of similar proteins, this being totally independent of sequence in the sense that only the relative spatial positions of mainchain alpha-carbon atoms need be known. This procedure leads to phyletic relationships that are in general correlated with the sequence phylogenies based on residue type. Such relationships among known protein three-dimensional structures are also a useful aid to their classification and selection in knowledge-based modeling using homologous structures. We have applied this approach to six homologous sets of proteins: immunoglobulin fragments, globins, cytochromesc, serine proteinases, eye-lens gamma crystallins, and dinucleotide-binding domains.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF02102452
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  • 2
    Electronic Resource
    Electronic Resource
    A method for the simultaneous alignment of three or more amino acid sequences (1986)
    Springer
    Journal of molecular evolution 23 (1986), S. 267-278 
    Details
    ISSN: 1432-1432
    Keywords: Simultaneous multiple alignments ; Amino acid sequences ; Globins ; Neurotoxins ; Protease inhibitors
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary We describe an algorithm for the concurrent comparison of three or more amino acid sequences. The basis of the approach is a progressive evaluation of selected segments from each sequence. Only a small subset of all possible segments from each sequence is compared, and a minimum of information is retained for the trace-back of the alignment. As a result, this method has the advantage of being both rapid and minimally consumptive of computer memory when constructing an alignment. This being the case, there are no practical limits on the length of sequences that may be aligned. A computer program for the alignment of three sequences is described, and this method is compared with two three-sequence extensions of the Needleman and Wunsch variety, including a recently published approach. In addition, we have made simultaneous alignments of sets of four and five sequences with this selected-segment method.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF02115583
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