StructAlign, a program for alignment of structures of DNA–protein complexes

Comparative analysis of structures of complexes of homologous proteins with DNA is important in the analysis of DNA–protein recognition. Alignment is a necessary stage of the analysis. An alignment is a matching of amino acid residues and nucleotides of one complex to residues and nucleotides of the...

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Bibliographic Details
Published in:Biochemistry (Moscow) 2015-11, Vol.80 (11), p.1465-1468
Main Authors: Popov, Ya. V., Galitsyna, A. A., Alexeevski, A. V., Karyagina, A. S., Spirin, S. A.
Format: Article
Language:English
Subjects:
Algorithms
Biochemistry
Bioinformatics
Biomedical and Life Sciences
Biomedicine
Bioorganic Chemistry
Comparative analysis
Deoxyribonucleic acid
DNA
DNA - chemistry
DNA - metabolism
Internet
Life Sciences
Microbiology
Nucleic Acid Conformation
Protein Binding
Protein Conformation
Proteins
Proteins - chemistry
Proteins - metabolism
User-Computer Interface
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Summary:Comparative analysis of structures of complexes of homologous proteins with DNA is important in the analysis of DNA–protein recognition. Alignment is a necessary stage of the analysis. An alignment is a matching of amino acid residues and nucleotides of one complex to residues and nucleotides of the other. Currently, there are no programs available for aligning structures of DNA–protein complexes. We present the program StructAlign, which should fill this gap. The program inputs a pair of complexes of DNA double helix with proteins and outputs an alignment of DNA chains corresponding to the best spatial fit of the protein chains.
ISSN:0006-2979
1608-3040
DOI:10.1134/S0006297915110073