Determined by distance

Oligo-distance: a Sequence Distance Determined by Word Frequencies

Differences in the frequencies of chemical words of a given length in two nucleic sequences are used to define an “oligo-distance” between the sequences. Oligo-distances are much easier and faster to compute than the distances conventionally determined by sequence alignment. A correlation between oligo-distance and alignment-distance is observed. The two kinds of distances are used to construct...

Complete multipartite graphs are determined by their distance spectra

Article history: Received 24 October 2013 Accepted 27 January 2014 Available online 6 February 2014 Submitted by R. Brualdi MSC: 05C50 05C12

ON NEW CLASSES OF MULTICONE GRAPHS DETERMINED BY THEIR SPECTRUMS

A multicone graph is defined to be join of a clique and a regular graph. A graph $ G $ is cospectral with graph $ H $ if their adjacency matrices have the same eigenvalues. A graph $ G $ is said to be determined by its spectrum or DS for short, if for any graph $ H $ with $ Spec(G)=Spec(H)$, we conclude that $ G $ is isomorphic to $ H $. In this paper, we present new classes of multicone graphs...

A Method for Defuzzication by Weighted Distance

Three-dimensional structure of proteins determined by molecular dynamics with interproton distance restraints: application to crambin.

Model calculations are performed to evaluate the utility of molecular dynamics with NMR interproton distance restraints for determining the three-dimensional structure of proteins. The system used for testing the method is the 1.5-A resolution crystal structure of crambin (a protein of 46 residues) from which a set of 240 approximate interproton distances of less than 4 A are derived. The conve...