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

Paul D Adams; Pavel V Afonine; Kumaran Baskaran; Helen M Berman; John Berrisford; Gerard Bricogne; David G Brown; Stephen K Burley; Minyu Chen; Zukang Feng; Claus Flensburg; Aleksandras Gutmanas; Jeffrey C Hoch; Yasuyo Ikegawa; Yumiko Kengaku; Eugene Krissinel; Genji Kurisu; Yuhe Liang; Dorothee Liebschner; Lora Mak; John L Markley; Nigel W Moriarty; Garib N Murshudov; Martin Noble; Ezra Peisach; Irina Persikova; Billy K Poon; Oleg V Sobolev; Eldon L Ulrich; Sameer Velankar; Clemens Vonrhein; John Westbrook; Marcin Wojdyr; Masashi Yokochi; Jasmine Y Young

doi:10.1107/S2059798319004522

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

Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):451-454. doi: 10.1107/S2059798319004522. Epub 2019 Apr 8.

Authors

Paul D Adams¹, Pavel V Afonine¹, Kumaran Baskaran², Helen M Berman³, John Berrisford⁴, Gerard Bricogne⁵, David G Brown⁶, Stephen K Burley³, Minyu Chen⁷, Zukang Feng³, Claus Flensburg⁵, Aleksandras Gutmanas⁴, Jeffrey C Hoch⁸, Yasuyo Ikegawa⁷, Yumiko Kengaku⁷, Eugene Krissinel⁹, Genji Kurisu⁷, Yuhe Liang³, Dorothee Liebschner¹, Lora Mak⁴, John L Markley², Nigel W Moriarty¹, Garib N Murshudov¹⁰, Martin Noble¹¹, Ezra Peisach³, Irina Persikova³, Billy K Poon¹, Oleg V Sobolev¹, Eldon L Ulrich², Sameer Velankar⁴, Clemens Vonrhein⁵, John Westbrook³, Marcin Wojdyr⁵, Masashi Yokochi⁷, Jasmine Y Young³

Affiliations

¹ Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
² BioMagResBank (BMRB), University of Wisconsin-Madison, Madison, WI 53706, USA.
³ Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.
⁴ Protein Data Bank in Europe (PDBe), European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.
⁵ Global Phasing Limited, Sheraton House, Castle Park, Cambridge, CB3 0AX, UK.
⁶ School of Biosciences, University of Kent, Canterbury, Kent CT2 7NJ, UK.
⁷ Protein Data Bank Japan (PDBj), Institute for Protein Research, Osaka University, Osaka, 565-0871, Japan.
⁸ BioMagResBank (BMRB), UConn Health, 263 Farmington Avenue, Farmington, CT 06030, USA.
⁹ CCP4, Research Complex at Harwell (RCaH), Rutherford Appleton Laboratory, Didcot, Oxon OX11 0FA, UK.
¹⁰ MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge, CB2 0QH, UK.
¹¹ Newcastle University, Framlington Place, Newcastle Upon Tyne, NE2 4HH, UK.

Abstract

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

Keywords: OneDep; PDB; PDBx/mmCIF format; Protein Data Bank; Worldwide Protein Data Bank; biocuration; data archiving; data dictionary; data standards; macromolecular crystallography; mmCIF; validation; wwPDB.

MeSH terms

Crystallography, X-Ray / methods*
Database Management Systems / standards*
Databases, Protein*
Humans
Protein Conformation*
Proteins / chemistry*
Software*

Substances

Proteins

Abstract

MeSH terms

Substances

Grants and funding