Protein Data Bank: the single global archive for 3D macromolecular structure data
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ID: 298532
2018
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Abstract
The Protein Data Bank (PDB) is the single global archive of experimentally determined three-dimensional (3D) structure data of biological macromolecules. Since 2003, the PDB has been managed by the Worldwide Protein Data Bank (wwPDB; wwpdb.org), an international consortium that collaboratively oversees deposition, validation, biocuration, and open access dissemination of 3D macromolecular structure data. The PDB Core Archive houses 3D atomic coordinates of more than 144 000 structural models of proteins, DNA/RNA, and their complexes with metals and small molecules and related experimental data and metadata. Structure and experimental data/metadata are also stored in the PDB Core Archive using the readily extensible wwPDB PDBx/mmCIF master data format, which will continue to evolve as data/metadata from new experimental techniques and structure determination methods are incorporated by the wwPDB. Impacts of the recently developed universal wwPDB OneDep deposition/validation/biocuration system and various methods-specific wwPDB Validation Task Forces on improving the quality of structures and data housed in the PDB Core Archive are described together with current challenges and future plans.
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| Authors | S.K. Burley, Helen M. Berman, Charmi Bhikadiya, Chunxiao Bi, Li Chen, Luigi Di Costanzo, Cole Christie, José M. Duarte, Shuchismita Dutta, Zukang Feng, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranović, Dmytro Guzenko, Brian P. Hudson, Yu‐He Liang, Robert Lowe, Ezra Peisach, Irina Periskova, Chris Randle, Alexander Rose, Monica Sekharan, Chenghua Shao, Yi‐Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jasmine Young, Christine Zardecki, Marina A. Zhuravleva, Genji Kurisu, Haruki Nakamura, Yumiko Kengaku, Hasumi Cho, Sato Junko, Ju Yaen Kim, Yasuyo Ikegawa, Atsushi Nakagawa, Reiko Yamashita, Takahiro KUDOU, Gert‐Jan Bekker, Hirofumi Suzuki, Takeshi Iwata, Masashi Yokochi, Naohiro Kobayashi, Toshimichi Fujiwara, Sameer Velankar, Gerard J. Kleywegt, Stephen Anyango, David Armstrong, John M. Berrisford, M.J. Conroy, Jose M Dana, Mandar Deshpande, Paul J. Gane, Romana Gáborová, Deepti Gupta, Aleksandras Gutmanas, Jaroslav Koča, Lora Mak, Saqib Mir, Abhik Mukhopadhyay, Nurul Nadzirin, Sreenath Nair, Ardan Patwardhan, Typhaine Paysan-Lafosse, Lukáš Pravda, Osman Salih, David Sehnal, Mihály Váradi, Radka Svobodová Vařeková, John L. Markley, Jeffrey C. Hoch, Pedro Romero, Kumaran Baskaran, Dimitri Maziuk, Eldon L. Ulrich, Jonathan R. Wedell, Hongyang Yao, Miron Livny, Yannis Ioannidis |
| Journal | Nucleic Acids Research |
| Year | 2018 |
| DOI |
10.1093/nar/gky949
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| URL | |
| Keywords | Keywords not found |
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