Structural alignment using the generalized Euclidean distance between conformations
Soft Condensed Matter
2009-08-05 v1 Biomolecules
Abstract
The usual Euclidean distance may be generalized to extended objects such as polymers or membranes. Here, this distance is used for the first time as a cost function to align structures. We examined the alignment of extended strands to idealized beta-hairpins of various sizes using several cost functions, including RMSD, MRSD, and the minimal distance. We find that using minimal distance as a cost function typically results in an aligned structure that is globally different than that given by an RMSD-based alignment
Cite
@article{arxiv.0908.0368,
title = {Structural alignment using the generalized Euclidean distance between conformations},
author = {Ali R. Mohazab and Steven S. Plotkin},
journal= {arXiv preprint arXiv:0908.0368},
year = {2009}
}
Comments
Accepted in IJQC