title: Enlarged FAMSBASE: protein 3D structure models of genome sequences for 41 species.
abstract: Enlarged FAMSBASE is a relational database of comparative protein structure models for the whole genome of 41 species, presented in the GTOP database. The models are calculated by Full Automatic Modeling System (FAMS). Enlarged FAMSBASE provides a wide range of query keys, such as name of ORF (open reading frame), ORF keywords, Protein Data Bank (PDB) ID, PDB heterogen atoms and sequence similarity. Heterogen atoms in PDB include cofactors, ligands and other factors that interact with proteins, and are a good starting point for analyzing interactions between proteins and other molecules. The data may also work as a template for drug design. The present number of ORFs with protein 3D models in FAMSBASE is 183 805, and the database includes an average of three models for each ORF. FAMSBASE is available at http://famsbase.bio.nagoya-u.ac.jp/famsbase/.
authors.affiliation: Division of Biological Science, Graduate School of Science, Nagoya University, Nagoya 464-8602, Japan.
authors.forename: Akihiro
authors.initials: A
authors.lastname: Yamaguchi
authors.forename: Mitsuo
authors.initials: M
authors.lastname: Iwadate
authors.forename: Ei-ichiro
authors.initials: E
authors.lastname: Suzuki
authors.forename: Kei
authors.initials: K
authors.lastname: Yura
authors.forename: Shigetsugu
authors.initials: S
authors.lastname: Kawakita
authors.forename: Hideaki
authors.initials: H
authors.lastname: Umeyama
authors.forename: Mitiko
authors.initials: M
authors.lastname: Go
mesh_terms: D000818:Animals; D003627:Data Interpretation, Statistical; D030562:Databases, Protein; D016678:Genome; D021621:Imaging, Three-Dimensional; D008958:Models, Molecular; D016366:Open Reading Frames; D011506:Proteins / Q000737:chemistry; D015203:Reproducibility of Results; D040681:Structural Homology, Protein
chemical_list: D011506:Proteins