TY - JOUR
T1 - Remediation of the protein data bank archive
AU - Henrick, Kim
AU - Feng, Zukang
AU - Bluhm, Wolfgang F.
AU - Dimitropoulos, Dimitris
AU - Doreleijers, Jurgen F.
AU - Dutta, Shuchismita
AU - Flippen-Anderson, Judith L.
AU - Ionides, John
AU - Kamada, Chisa
AU - Krissinel, Eugene
AU - Lawson, Catherine L.
AU - Markley, John L.
AU - Nakamura, Haruki
AU - Newman, Richard
AU - Shimizu, Yukiko
AU - Swaminathan, Jawahar
AU - Velankar, Sameer
AU - Ory, Jeramia
AU - Ulrich, Eldon L.
AU - Vranken, Wim
AU - Westbrook, John
AU - Yamashita, Reiko
AU - Yang, Huanwang
AU - Young, Jasmine
AU - Yousufuddin, Muhammed
AU - Berman, Helen M.
N1 - Funding Information:
The contributions of all of the wwPDB staff members are gratefully acknowledged. Special thanks goes to the many PDB users who tested the remediated data and provided comments, especially Dan Bolser, Alexandre M.J.J. Bonvin, Tommy Carstensen, Roland Dunbrack, Howard Feldman, Dave Howorth, Miron Livny, Eric Pettersen, the Richardson Lab at Duke University and Clemens Vonrhein. The RCSB PDB is operated by Rutgers, The State University of New Jersey and the University of California, San Diego. It is supported by funds from the National Science Foundation, the National Institute of General Medical Sciences, the Office of Science, Department of Energy, the National Library of Medicine, the National Cancer Institute, the National Center for Research Resources, the National Institute of Biomedical Imaging and Bioengineering, National Institute of Neurological Disorders and Stroke and the National Institute of Diabetes and Digestive and Kidney Diseases. The EMBL-EBI MSD group gratefully acknowledges the support of the Wellcome Trust, the EU (FELICS, EXTENDNMR, EuroCarbDB and 3DEM), the BBSRC, the MRC and EMBL. PDBj is supported by grant-in-aid from the Institute for Bioinformatics Research and Development, Japan Science and Technology Agency (BIRD-JST), and the Ministry of Education, Culture, Sports, Science and Technology (MEXT). The BMRB is supported by NIH grant LM05799 from the National Library of Medicine. Funding to pay the Open Access publication charge was provided by NSF DBI 03-12718.
PY - 2008/1
Y1 - 2008/1
N2 - The Worldwide Protein Data Bank (wwPDB; wwpdb.org) is the international collaboration that manages the deposition, processing and distribution of the PDB archive. The online PDB archive at ftp://ftp.wwpdb.org is the repository for the coordinates and related information for more than 47 000 structures, including proteins, nucleic acids and large macromolecular complexes that have been determined using X-ray crystallography, NMR and electron microscopy techniques. The members of the wwPDB-RCSB PDB (USA), MSD-EBI (Europe), PDBj (Japan) and BMRB (USA)-have remediated this archive to address inconsistencies that have been introduced over the years. The scope and methods used in this project are presented.
AB - The Worldwide Protein Data Bank (wwPDB; wwpdb.org) is the international collaboration that manages the deposition, processing and distribution of the PDB archive. The online PDB archive at ftp://ftp.wwpdb.org is the repository for the coordinates and related information for more than 47 000 structures, including proteins, nucleic acids and large macromolecular complexes that have been determined using X-ray crystallography, NMR and electron microscopy techniques. The members of the wwPDB-RCSB PDB (USA), MSD-EBI (Europe), PDBj (Japan) and BMRB (USA)-have remediated this archive to address inconsistencies that have been introduced over the years. The scope and methods used in this project are presented.
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U2 - 10.1093/nar/gkm937
DO - 10.1093/nar/gkm937
M3 - Article
C2 - 18073189
AN - SCOPUS:38549176153
SN - 0305-1048
VL - 36
SP - D426-D433
JO - Nucleic Acids Research
JF - Nucleic Acids Research
IS - SUPPL. 1
ER -