Announcing mandatory submission of PDBx/mmCIF format files for crystallographic depositions to the Protein Data Bank (PDB)

Paul D. Adams(Lawrence Berkeley National Laboratory), Pavel V. Afonine(Lawrence Berkeley National Laboratory), Kumaran Baskaran(University of Wisconsin–Madison), Helen M. Berman(Rutgers, The State University of New Jersey), John M. Berrisford(European Bioinformatics Institute), G. Bricogne(Global Phasing (United Kingdom)), D. Brown(University of Kent), S.K. Burley(Rutgers, The State University of New Jersey), Minyu Chen(Protein Research Foundation), Zukang Feng(Rutgers, The State University of New Jersey), Claus Flensburg(Global Phasing (United Kingdom)), Aleksandras Gutmanas(European Bioinformatics Institute), Jeffrey C. Hoch(UConn Health), Yasuyo Ikegawa(Protein Research Foundation), Yumiko Kengaku(Protein Research Foundation), Eugene Krissinel(Rutherford Appleton Laboratory), Genji Kurisu(Protein Research Foundation), Yu‐He Liang(Rutgers, The State University of New Jersey), Dorothée Liebschner(Lawrence Berkeley National Laboratory), Lora Mak(European Bioinformatics Institute), John L. Markley(University of Wisconsin–Madison), Nigel W. Moriarty(Lawrence Berkeley National Laboratory), Garib N. Murshudov(MRC Laboratory of Molecular Biology), M.E.M. Noble(Newcastle University), Ezra Peisach(Rutgers, The State University of New Jersey), Irina Persikova(Rutgers, The State University of New Jersey), Billy K. Poon(Lawrence Berkeley National Laboratory), Oleg V. Sobolev(Lawrence Berkeley National Laboratory), Eldon L. Ulrich(University of Wisconsin–Madison), Sameer Velankar(European Bioinformatics Institute), Clemens Vonrhein(Global Phasing (United Kingdom)), John Westbrook(Rutgers, The State University of New Jersey), Marcin Wojdyr(Rutherford Appleton Laboratory), Masashi Yokochi(Protein Research Foundation), Jasmine Young(Rutgers, The State University of New Jersey)
Acta Crystallographica Section D Structural Biology
April 1, 2019
10.1107/s2059798319004522
Cited by 74Open Access
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Abstract

The Protein Data Bank (PDB) (wwPDB consortium, 2019) is the single global archive of experimentally determined three-dimensional (3D) structure data of biological macromolecules. The continuing growth in the numbers, size and complexity of macromolecular structures in the PDB archive, coupled with the rapid growth of evolving experimental methods such as 3D cryo-electron microscopy (3DEM) has made the traditional PDB format (`legacy PDB format') inadequate for fully representing these data. Here, as described below, this format was based on a punched-card format that became obsolete long ago. In the following letter, we describe the changes necessary to address the challenges coming from the extraordinary success of structural biologists.

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