RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy

Burley, Stephen K.; Berman, Helen M.; Bhikadiya, Charmi; Bi, Chunxiao; Chen, Li; Di Costanzo, Luigi; Christie, Cole; Dalenberg, Ken; Duarte, Jose M.; Dutta, Shuchismita; Feng, Zukang; Ghosh, Sutapa; Goodsell, David S.; Green, Rachel K.; Guranović, Vladimir; Guzenko, Dmytro; Hudson, Brian P.; Kalro, Tara; Liang, Yuhe; Lowe, Robert; Namkoong, Harry; Peisach, Ezra; Periskova, Irina; Prlić, Andreas; Randle, Chris; Rose, Alexander; Rose, Peter; Sala, Raul; Sekharan, Monica; Shao, Chenghua; Tan, Lihua; Tao, Yi-Ping; Valasatava, Yana; Voigt, Maria; Westbrook, John; Woo, Jesse; Yang, Huanwang; Young, Jasmine; Zhuravleva, Marina; Zardecki, Christine

doi:10.1093/nar/gky1004

RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy

Journal Article · Wed Oct 24 00:00:00 EDT 2018 · Nucleic Acids Research

DOI:https://doi.org/10.1093/nar/gky1004· OSTI ID:1600525

Burley, Stephen K. ^[1]; Berman, Helen M. ^[2]; Bhikadiya, Charmi ^[2]; Bi, Chunxiao ^[3]; Chen, Li ^[2]; Di Costanzo, Luigi ^[2]; Christie, Cole ^[3]; Dalenberg, Ken ^[2]; Duarte, Jose M. ^[3]; Dutta, Shuchismita ^[2]; Feng, Zukang ^[2]; Ghosh, Sutapa ^[2]; Goodsell, David S. ^[4]; Green, Rachel K. ^[2]; Guranović, Vladimir ^[2]; Guzenko, Dmytro ^[3]; Hudson, Brian P. ^[2]; Kalro, Tara ^[5]; Liang, Yuhe ^[2]; Lowe, Robert ^[2] more »

Rutgers Univ., Piscataway, NJ (United States); Univ. of California, San Diego, CA (United States); Rutgers Univ., New Brunswick, NJ (United States); RCSB Protein Data Bank
Rutgers Univ., Piscataway, NJ (United States)
Univ. of California, San Diego, CA (United States)
Rutgers Univ., Piscataway, NJ (United States); The Scripps Research Inst., La Jolla, CA (United States)
Univ. of California, San Diego, CA (United States); ResMed, San Diego, CA (United States)
Univ. of California, San Diego, CA (United States); Movemedical, San Diego, CA (United States)
Rutgers Univ., Piscataway, NJ (United States); Comcast, Philadelphia, PA (United States)

The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB, rcsb.org), the US data center for the global PDB archive, serves thousands of Data Depositors in the Americas and Oceania and makes 3D macromolecular structure data available at no charge and without usage restrictions to more than 1 million rcsb.org Users worldwide and 600,000 pdb101.rcsb.org education-focused Users around the globe. PDB Data Depositors include structural biologists using macromolecular crystallography, nuclear magnetic resonance spectroscopy, and 3D electron microscopy. PDB Data Consumers include researchers, educators, and students studying Fundamental Biology, Biomedicine, Biotechnology, and Energy. Recent reorganization of RCSB PDB activities into four integrated, interdependent services is described in detail, together with tools and resources added over the past two years to RCSB PDB web portals in support of a ‘Structural View of Biology.’

View Accepted Manuscript (DOE)

Research Organization:: Rutgers Univ., New Brunswick, NJ (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23); National Science Foundation (NSF)

Grant/Contract Number:: SC0019749

OSTI ID:: 1600525

Journal Information:: Nucleic Acids Research, Journal Name: Nucleic Acids Research Journal Issue: D1 Vol. 47; ISSN 0305-1048

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United States

Language:: English

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Findable Accessible Interoperable Re-usable (FAIR) diffraction data are coming to protein crystallography Helliwell, John R.; Minor, Wladek; Weiss, Manfred S. Acta Crystallographica Section D Structural Biology, Vol. 75, Issue 5 https://doi.org/10.1107/s2059798319004844	journal	April 2019
Combining random microseed matrix screening and the magic triangle for the efficient structure solution of a potential lysin from bacteriophage P68 Truong, Jia Quyen; Panjikar, Santosh; Shearwin-Whyatt, Linda Acta Crystallographica Section D Structural Biology, Vol. 75, Issue 7 https://doi.org/10.1107/s2059798319009008	journal	July 2019
Combining random microseed matrix screening and the magic triangle for the efficient structure solution of a potential lysin from bacteriophage P68 Truong, Jia Quyen; Panjikar, Santosh; Shearwin-Whyatt, Linda International Union of Crystallography (IUCr) https://doi.org/10.1107/s2059798319009008/jb5009sup1.pdf	text	January 2019
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix Liebschner, Dorothee; Afonine, Pavel V.; Baker, Matthew L. Acta Crystallographica Section D Structural Biology, Vol. 75, Issue 10 https://doi.org/10.1107/s2059798319011471	journal	October 2019
Improved chemistry restraints for crystallographic refinement by integrating the Amber force field into Phenix Moriarty, Nigel W.; Janowski, Pawel A.; Swails, Jason M. Acta Crystallographica Section D Structural Biology, Vol. 76, Issue 1 https://doi.org/10.1107/s2059798319015134	journal	January 2020
Structures and interactions of syndecans Gondelaud, Frank; Ricard‐Blum, Sylvie The FEBS Journal, Vol. 286, Issue 15 https://doi.org/10.1111/febs.14828	journal	February 2019
Homology Modelling and Molecular Docking Studies of Selected Substituted Benzo[ d ]imidazol-1-yl)methyl)benzimidamide Scaffolds on Plasmodium falciparum Adenylosuccinate Lyase Receptor Oduselu, Gbolahan O.; Ajani, Olayinka O.; Ajamma, Yvonne U. Bioinformatics and Biology Insights, Vol. 13 https://doi.org/10.1177/1177932219865533	journal	January 2019
Structural biology: Gaining atomic level insight into the biological function of macromolecules Thompson, Thomas B.; Kovall, Rhett A. Experimental Biology and Medicine, Vol. 244, Issue 17 https://doi.org/10.1177/1535370219887678	journal	November 2019
Genome-wide mutation analysis of Helicobacter pylori after inoculation to Mongolian gerbils Suzuki, Rumiko; Satou, Kazuhito; Shiroma, Akino Gut Pathogens, Vol. 11, Issue 1 https://doi.org/10.1186/s13099-019-0326-5	journal	September 2019
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in Phenix. Liebschner, Dorothee; Afonine, Pavel V.; Baker, Matthew L. Apollo - University of Cambridge Repository https://doi.org/10.17863/cam.43042	text	January 2019
ProCarbDB: A Database of Carbohydrate-binding Proteins Copoiu, Liviu; Torres, Pedro HM; Asher, David Benjamin Oxford University Press https://doi.org/10.17863/cam.44922	journalarticle	January 2020
Continuous Evaluation of Ligand Protein Predictions: A Weekly Community Challenge for Drug Docking Wagner, Jeffrey R.; Churas, Christopher P.; Liu, Shuai SSRN Electronic Journal https://doi.org/10.2139/ssrn.3291330	journal	January 2018
Further Elucidation of the Argonaute and Dicer Protein Families in the Model Grass Species Brachypodium distachyon Šečić, Ena; Zanini, Silvia; Kogel, Karl-Heinz Frontiers in Plant Science, Vol. 10 https://doi.org/10.3389/fpls.2019.01332	journal	October 2019
Identification of Structural Motifs Using Networks of Hydrogen-Bonded Base Interactions in RNA Crystallographic Structures Hamdani, Hazrina Yusof; Firdaus-Raih, Mohd Crystals, Vol. 9, Issue 11 https://doi.org/10.3390/cryst9110550	journal	October 2019
Application of the SwissDrugDesign Online Resources in Virtual Screening Daina, Antoine; Zoete, Vincent International Journal of Molecular Sciences, Vol. 20, Issue 18 https://doi.org/10.3390/ijms20184612	journal	September 2019
Integrated Computational Approaches and Tools for Allosteric Drug Discovery Sheik Amamuddy, Olivier; Veldman, Wayde; Manyumwa, Colleen International Journal of Molecular Sciences, Vol. 21, Issue 3 https://doi.org/10.3390/ijms21030847	journal	January 2020
Synthesis, Properties and Antimicrobial Activity of 5-Trifluoromethyl-2-formylphenylboronic Acid Adamczyk-Woźniak, Agnieszka; Gozdalik, Jan T.; Wieczorek, Dorota Molecules, Vol. 25, Issue 4 https://doi.org/10.3390/molecules25040799	journal	February 2020
A Comprehensive Cheminformatics Analysis of Structural Features Affecting the Binding Activity of Fullerene Derivatives Fjodorova, Natalja; Novič, Marjana; Venko, Katja Nanomaterials, Vol. 10, Issue 1 https://doi.org/10.3390/nano10010090	journal	January 2020

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RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences

Journal Article · Wed Nov 18 23:00:00 EST 2020 · Nucleic Acids Research · OSTI ID:1734440

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RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy

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