New tools and functions in data‐out activities at Protein Data Bank Japan (PDBj)

Akira R. Kinjo(Protein Research Foundation), Gert‐Jan Bekker(Protein Research Foundation), Hiroshi Wako(Waseda University), Shigeru Endo(Kitasato University), Yuko Tsuchiya(Protein Research Foundation), Hiromu Sato(Tohoku University), Hafumi Nishi(Tohoku University), Kengo Kinoshita(Tohoku University), Hirofumi Suzuki(Protein Research Foundation), Takeshi Kawabata(Protein Research Foundation), Masashi Yokochi(Protein Research Foundation), Takeshi Iwata(Protein Research Foundation), Naohiro Kobayashi(Protein Research Foundation), Toshimichi Fujiwara(Protein Research Foundation), Genji Kurisu(Protein Research Foundation), Haruki Nakamura(Protein Research Foundation)
Protein Science
August 17, 2017
10.1002/pro.3273
Cited by 104Open Access
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Abstract

The Protein Data Bank Japan (PDBj), a member of the worldwide Protein Data Bank (wwPDB), accepts and processes the deposited data of experimentally determined biological macromolecular structures. In addition to archiving the PDB data in collaboration with the other wwPDB partners, PDBj also provides a wide range of original and unique services and tools, which are continuously improved and updated. Here, we report the new RDB PDBj Mine 2, the WebGL molecular viewer Molmil, the ProMode-Elastic server for normal mode analysis, a virtual reality system for the eF-site protein electrostatic molecular surfaces, the extensions of the Omokage search for molecular shape similarity, and the integration of PDBj and BMRB searches.

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