title: NPIDB: Nucleic acid-Protein Interaction DataBase.
abstract: The Nucleic acid-Protein Interaction DataBase (http://npidb.belozersky.msu.ru/) contains information derived from structures of DNA-protein and RNA-protein complexes extracted from the Protein Data Bank (3846 complexes in October 2012). It provides a web interface and a set of tools for extracting biologically meaningful characteristics of nucleoprotein complexes. The content of the database is updated weekly. The current version of the Nucleic acid-Protein Interaction DataBase is an upgrade of the version published in 2007. The improvements include a new web interface, new tools for calculation of intermolecular interactions, a classification of SCOP families that contains DNA-binding protein domains and data on conserved water molecules on the DNA-protein interface.
authors.affiliation: Department of Mathematical Methods in Biology, Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia.
authors.forename: Dmitry D
authors.initials: DD
authors.lastname: Kirsanov
authors.forename: Olga N
authors.initials: ON
authors.lastname: Zanegina
authors.forename: Evgeniy A
authors.initials: EA
authors.lastname: Aksianov
authors.forename: Sergei A
authors.initials: SA
authors.lastname: Spirin
authors.forename: Anna S
authors.initials: AS
authors.lastname: Karyagina
authors.forename: Andrei V
authors.initials: AV
authors.lastname: Alexeevski
mesh_terms: D004247:DNA / Q000737:chemistry*; D004268:DNA-Binding Proteins / Q000737:chemistry*; D030562:Databases, Protein; D020407:Internet; D009690:Nucleic Acid Conformation; D017434:Protein Structure, Tertiary; D012313:RNA / Q000737:chemistry*; D016601:RNA-Binding Proteins / Q000737:chemistry*; D012984:Software; D014584:User-Computer Interface; D014867:Water / Q000737:chemistry
chemical_list: D004268:DNA-Binding Proteins; D016601:RNA-Binding Proteins; D014867:Water; D012313:RNA; D004247:DNA