Search Results - "Ikegawa, Yasuyo"

Protein Data Bank Japan (PDBj): updated user interfaces, resource description framework, analysis tools for large structures by Kinjo, Akira R, Bekker, Gert-Jan, Suzuki, Hirofumi, Tsuchiya, Yuko, Kawabata, Takeshi, Ikegawa, Yasuyo, Nakamura, Haruki

“…The Protein Data Bank Japan (PDBj, http://pdbj.org), a member of the worldwide Protein Data Bank (wwPDB), accepts and processes the deposited data of…”
Get full text

Validation of Structures in the Protein Data Bank by Gore, Swanand, Sanz García, Eduardo, Hendrickx, Pieter M.S., Gutmanas, Aleksandras, Westbrook, John D., Yang, Huanwang, Feng, Zukang, Baskaran, Kumaran, Berrisford, John M., Hudson, Brian P., Ikegawa, Yasuyo, Kobayashi, Naohiro, Lawson, Catherine L., Mading, Steve, Mak, Lora, Mukhopadhyay, Abhik, Oldfield, Thomas J., Patwardhan, Ardan, Peisach, Ezra, Sahni, Gaurav, Sekharan, Monica R., Sen, Sanchayita, Shao, Chenghua, Smart, Oliver S., Ulrich, Eldon L., Yamashita, Reiko, Quesada, Martha, Young, Jasmine Y., Nakamura, Haruki, Markley, John L., Berman, Helen M., Burley, Stephen K., Velankar, Sameer, Kleywegt, Gerard J.

“…The Worldwide PDB recently launched a deposition, biocuration, and validation tool: OneDep. At various stages of OneDep data processing, validation reports for…”
Get full text

Protein Data Bank Japan: Celebrating our 20th anniversary during a global pandemic as the Asian hub of three dimensional macromolecular structural data by Bekker, Gert‐Jan, Yokochi, Masashi, Suzuki, Hirofumi, Ikegawa, Yasuyo, Iwata, Takeshi, Kudou, Takahiro, Yura, Kei, Fujiwara, Toshimichi, Kawabata, Takeshi, Kurisu, Genji

“…Protein Data Bank Japan (PDBj), a founding member of the worldwide Protein Data Bank (wwPDB) has accepted, processed and distributed experimentally determined…”
Get full text

Announcing mandatory submission of PDBx/mmCIF format files for crystallographic depositions to the Protein Data Bank (PDB) by Adams, Paul D., Afonine, Pavel V., Baskaran, Kumaran, Berman, Helen M., Berrisford, John, Bricogne, Gerard, Brown, David G., Burley, Stephen K., Chen, Minyu, Feng, Zukang, Flensburg, Claus, Gutmanas, Aleksandras, Hoch, Jeffrey C., Ikegawa, Yasuyo, Kengaku, Yumiko, Krissinel, Eugene, Kurisu, Genji, Liang, Yuhe, Liebschner, Dorothee, Mak, Lora, Markley, John L., Moriarty, Nigel W., Murshudov, Garib N., Noble, Martin, Peisach, Ezra, Persikova, Irina, Poon, Billy K., Sobolev, Oleg V., Ulrich, Eldon L., Velankar, Sameer, Vonrhein, Clemens, Westbrook, John, Wojdyr, Marcin, Yokochi, Masashi, Young, Jasmine Y.

“…This letter announces that PDBx/mmCIF format files will become mandatory for crystallographic depositions to the Protein Data Bank (PDB). This letter announces…”
Get full text

Modernized uniform representation of carbohydrate molecules in the Protein Data Bank by Shao, Chenghua, Feng, Zukang, Westbrook, John D, Peisach, Ezra, Berrisford, John, Ikegawa, Yasuyo, Kurisu, Genji, Velankar, Sameer, Burley, Stephen K, Young, Jasmine Y

“…Abstract Since 1971, the Protein Data Bank (PDB) has served as the single global archive for experimentally determined 3D structures of biological…”
Get full text

EMDB—the Electron Microscopy Data Bank by Turner, Jack, Abbott, Sanja, Fonseca, Neli, Pye, Ryan, Carrijo, Lucas, Duraisamy, Amudha Kumari, Salih, Osman, Wang, Zhe, Kleywegt, Gerard J, Morris, Kyle L, Patwardhan, Ardan, Burley, Stephen K, Crichlow, Gregg, Feng, Zukang, Flatt, Justin W, Ghosh, Sutapa, Hudson, Brian P, Lawson, Catherine L, Liang, Yuhe, Peisach, Ezra, Persikova, Irina, Sekharan, Monica, Shao, Chenghua, Young, Jasmine, Velankar, Sameer, Armstrong, David, Bage, Marcus, Bueno, Wesley Morellato, Evans, Genevieve, Gaborova, Romana, Ganguly, Sudakshina, Gupta, Deepti, Harrus, Deborah, Tanweer, Ahsan, Bansal, Manju, Rangannan, Vetriselvi, Kurisu, Genji, Cho, Hasumi, Ikegawa, Yasuyo, Kengaku, Yumiko, Kim, Ju Yaen, Niwa, Satomi, Sato, Junko, Takuwa, Ayako, Yu, Jian, Hoch, Jeffrey C, Baskaran, Kumaran, Xu, Wenqing, Zhang, Weizhe, Ma, Xiaodan

“…Abstract The Electron Microscopy Data Bank (EMDB) is the global public archive of three-dimensional electron microscopy (3DEM) maps of biological specimens…”
Get full text

Protein Data Bank Japan (PDBj): maintaining a structural data archive and resource description framework format by Kinjo, Akira R., Suzuki, Hirofumi, Yamashita, Reiko, Ikegawa, Yasuyo, Kudou, Takahiro, Igarashi, Reiko, Kengaku, Yumiko, Cho, Hasumi, Standley, Daron M., Nakagawa, Atsushi, Nakamura, Haruki

“…The Protein Data Bank Japan (PDBj, http://pdbj.org) is a member of the worldwide Protein Data Bank (wwPDB) and accepts and processes the deposited data of…”
Get full text

The life and times of the PDB format – looking towards the future with mmCIF by Crichlow, Gregg, Lawson, Catherine, Westbrook, John, Burley, Stephen, Abbott, Sanja, Baskaran, Kumaran, Berrisford, John, Feng, Zukang, Ikegawa, Yasuyo, Yokochi, Masashi, Young, Jasmine Y., Hoch, Jeffrey, Kurisu, Genji

“…Abstract only…”
Get full text

PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank by Choudhary, Preeti, Feng, Zukang, Berrisford, John, Chao, Henry, Ikegawa, Yasuyo, Peisach, Ezra, Piehl, Dennis W, Smith, James, Tanweer, Ahsan, Varadi, Mihaly, Westbrook, John D, Young, Jasmine Y, Patwardhan, Ardan, Morris, Kyle L, Hoch, Jeffrey C, Kurisu, Genji, Velankar, Sameer, Burley, Stephen K

“…The Protein Data Bank (PDB) is the global repository for public-domain experimentally determined 3D biomolecular structural information. The archival nature of…”
Get full text

Enabling depositor-initiated PDB coordinate replacement through file versioning by Zardecki, Christine, Young, Jasmine, Westbrook, John, Feng, Zukang, Peisach, Ezra, Persikova, Irina, Liang, Yuhe, Gutmanas, Aleks, Berrisford, John, Ikegawa, Yasuyo, Chen, Minyu, Burley, Stephen K., Valenkar, Sameer, Kurisu, Genji

“…Abstract only…”
Get full text

Protein Data Bank: the single global archive for 3D macromolecular structure data by Burley, Stephen K., Berman, Helen M., Bhikadiya, Charmi, Bi, Chunxiao, Chen, Li, Costanzo, Luigi Di, Christie, Cole, Duarte, Jose M., Dutta, Shuchismita, Feng, Zukang, Ghosh, Sutapa, Goodsell, David S., Green, Rachel Kramer, Guranovic, Vladimir, Guzenko, Dmytro, Hudson, Brian P., Liang, Yuhe, Lowe, Robert, Peisach, Ezra, Periskova, Irina, Randle, Chris, Rose, Alexander, Sekharan, Monica, Shao, Chenghua, Tao, Yi-Ping, Valasatava, Yana, Voigt, Maria, Westbrook, John, Young, Jasmine, Zardecki, Christine, Zhuravleva, Marina, Kurisu, Genji, Nakamura, Haruki, Kengaku, Yumiko, Cho, Hasumi, Sato, Junko, Kim, Ju Yaen, Ikegawa, Yasuyo, Nakagawa, Atsushi, Yamashita, Reiko, Kudou, Takahiro, Bekker, Gert-Jan, Suzuki, Hirofumi, Iwata, Takeshi, Yokochi, Masashi, Kobayashi, Naohiro, Fujiwara, Toshimichi, Velankar, Sameer, Kleywegt, Gerard J., Anyango, Stephen, Armstrong, David R., Berrisford, John M., Conroy, Matthew J., Dana, Jose M., Deshpande, Mandar, Gane, Paul, Gáborová, Romana, Gupta, Deepti, Gutmanas, Aleksandras, Koča, Jaroslav, Mak, Lora, Mir, Saqib, Mukhopadhyay, Abhik, Nadzirin, Nurul, Nair, Sreenath, Patwardhan, Ardan, Paysan-Lafosse, Typhaine, Pravda, Lukas, Salih, Osman, Sehnal, David, Varadi, Mihaly, Vařeková, Radka, Markley, John L., Hoch, Jeffrey C., Romero, Pedro R., Baskaran, Kumaran, Maziuk, Dimitri, Ulrich, Eldon L., Wedell, Jonathan R., Yao, Hongyang, Livny, Miron, Ioannidis, Yannis E.

“…The Protein Data Bank (PDB) is the single global archive of experimentally determined three-dimensional (3D) structure data of biological macromolecules. Since…”
Get full text

Protein Data Bank Japan (PDBj): maintaining a structural data archive and resource description framework format by Kinjo, A. R., Suzuki, H., Yamashita, R., Ikegawa, Y., Kudou, T., Igarashi, R., Kengaku, Y., Cho, H., Standley, D. M., Nakagawa, A., Nakamura, H.

Get full text