Multiple Alignment of protein structures and sequences for VMD

John Eargle, Dan Wright, Zaida Luthey-Schulten

Research output: Contribution to journalArticlepeer-review


Multiple Alignment is a new interface for performing and analyzing multiple protein structure alignments. It enables viewing levels of sequence and structure similarity on the aligned structures and performing a variety of evolutionary and bioinformatic tasks, including the construction of structure-based phylogenetic trees and minimal basis sets of structures that best represent the topology of the phylogenetic tree. It is implemented as a plugin for VMD (Visual Molecular Dynamics), which is distributed by the NIH Resource for Macromolecular Modeling and Bioinformatics at the University of Illinois.

Original languageEnglish (US)
Pages (from-to)504-506
Number of pages3
Issue number4
StatePublished - Feb 15 2006

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics


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