title: StructAlign, a Program for Alignment of Structures of DNA-Protein Complexes.
abstract: 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.
authors.affiliation: Lomonosov Moscow State University, Faculty of Bioengineering and Bioinformatics, Moscow, 119991, Russia.
authors.forename: Ya V
authors.initials: YV
authors.lastname: Popov
authors.forename: A A
authors.initials: AA
authors.lastname: Galitsyna
authors.forename: A V
authors.initials: AV
authors.lastname: Alexeevski
authors.forename: A S
authors.initials: AS
authors.lastname: Karyagina
authors.forename: S A
authors.initials: SA
authors.lastname: Spirin
mesh_terms: D000465:Algorithms; D004247:DNA / Q000737:chemistry / Q000378:metabolism*; D020407:Internet; D009690:Nucleic Acid Conformation; D011485:Protein Binding; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry / Q000378:metabolism*; D014584:User-Computer Interface
chemical_list: D011506:Proteins; D004247:DNA