title: Integrated database of information from structural genomics experiments.
abstract: Information from structural genomics experiments at the RIKEN SPring-8 Center, Japan has been compiled and published as an integrated database. The contents of the database are (i) experimental data from nine species of bacteria that cover a large variety of protein molecules in terms of both evolution and properties (http://database.riken.jp/db/bacpedia), (ii) experimental data from mutant proteins that were designed systematically to study the influence of mutations on the diffraction quality of protein crystals (http://database.riken.jp/db/bacpedia) and (iii) experimental data from heavy-atom-labelled proteins from the heavy-atom database HATODAS (http://database.riken.jp/db/hatodas). The database integration adopts the semantic web, which is suitable for data reuse and automatic processing, thereby allowing batch downloads of full data and data reconstruction to produce new databases. In addition, to enhance the use of data (i) and (ii) by general researchers in biosciences, a comprehensible user interface, Bacpedia (http://bacpedia.harima.riken.jp), has been developed.
authors: Protein Crystallography Research Group, RIKEN SPring-8 Center, Harima Institute, 1-1-1 Kouto, Sayo-cho, Sayo-gun, Hyogo 679-5148, Japan.
authors: Yukuhiko
authors: Y
authors: Asada
authors: Michihiro
authors: M
authors: Sugahara
authors: Hisashi
authors: H
authors: Mizutani
authors: Hisashi
authors: H
authors: Naitow
authors: Tomoyuki
authors: T
authors: Tanaka
authors: Yoshinori
authors: Y
authors: Matsuura
authors: Yoshihiro
authors: Y
authors: Agari
authors: Akio
authors: A
authors: Ebihara
authors: Akeo
authors: A
authors: Shinkai
authors: Seiki
authors: S
authors: Kuramitsu
authors: Shigeyuki
authors: S
authors: Yokoyama
authors: Eri
authors: E
authors: Kaminuma
authors: Norio
authors: N
authors: Kobayashi
authors: Koro
authors: K
authors: Nishikata
authors: Sayoko
authors: S
authors: Shimoyama
authors: Tetsuro
authors: T
authors: Toyoda
authors: Tetsuya
authors: T
authors: Ishikawa
authors: Naoki
authors: N
authors: Kunishima
mesh_terms: D001426:Bacterial Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D003460:Crystallization; D016208:Databases, Factual; D023281:Genomics / Q000379:methods; D020407:Internet; D007564:Japan; D011506:Proteins / Q000737:chemistry* / Q000235:genetics*; D014584:User-Computer Interface
chemical_list: D001426:Bacterial Proteins; D011506:Proteins
keywords: X-rays; crystal structures; heavy atoms; protein crystallography; semantic web; synchrotron radiation