Journal
JOURNAL OF COMPUTATIONAL BIOLOGY
Volume 23, Issue 1, Pages 21-26Publisher
MARY ANN LIEBERT, INC
DOI: 10.1089/cmb.2015.0143
Keywords
protein structure; sequence analysis; structural and functional genomics
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DynDom3D is a program for the analysis of domain movements in multimeric proteins. Its inputs are two structure files that indicate a possible domain movement, but the onus has been on the user to process the files so that there is the necessary one-to-one equivalence between atoms in the two atom lists. This is often a prohibitive task to carry out manually, which has limited the application of DynDom3D. Here we report on a webserver with a preprocessor that automatically creates an equivalence between atoms using sequence alignment methods. The processed structure files are passed to DynDom3D and the results are presented on a webpage that includes molecular graphics for easy visualization.
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