RCSB Protein Data Bank: Celebrating 50 years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D

Burley, Stephen K.; Bhikadiya, Charmi; Bi, Chunxiao; Bittrich, Sebastian; Chen, Li; Crichlow, Gregg V.; Duarte, Jose M.; Dutta, Shuchismita; Fayazi, Maryam; Feng, Zukang; Flatt, Justin W.; Ganesan, Sai J.; Goodsell, David S.; Ghosh, Sutapa; Kramer Green, Rachel; Guranovic, Vladimir; Henry, Jeremy; Hudson, Brian P.; Lawson, Catherine L.; Liang, Yuhe; Lowe, Robert; Peisach, Ezra; Persikova, Irina; Piehl, Dennis W.; Rose, Yana; Sali, Andrej; Segura, Joan; Sekharan, Monica; Shao, Chenghua; Vallat, Brinda; Voigt, Maria; Westbrook, John D.; Whetstone, Shamara; Young, Jasmine Y.; Zardecki, Christine

doi:10.1002/pro.4213

Title: RCSB Protein Data Bank: Celebrating 50 years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D

Journal Article · Fri Oct 22 00:00:00 EDT 2021 · Protein Science

DOI:https://doi.org/10.1002/pro.4213· OSTI ID:1976373

^[1]; Bhikadiya, Charmi ^[2]; Bi, Chunxiao ^[3]; Bittrich, Sebastian ^[3]; Chen, Li ^[2]; Crichlow, Gregg V. ^[2];

^[3]; Dutta, Shuchismita ^[2]; Fayazi, Maryam ^[2]; Feng, Zukang ^[2]; Flatt, Justin W. ^[2]; Ganesan, Sai J. ^[4];

^[5]; Ghosh, Sutapa ^[2]; Kramer Green, Rachel ^[2]; Guranovic, Vladimir ^[2]; Henry, Jeremy ^[3]; Hudson, Brian P. ^[2]; Lawson, Catherine L. ^[2]; Liang, Yuhe ^[2] more »

Rutgers University, Piscataway, NJ (United States); University of California San Diego, La Jolla, CA (United States)
Rutgers University, Piscataway, NJ (United States)
University of California San Diego, La Jolla, CA (United States)
University of California, San Francisco, CA (United States)
Rutgers University, Piscataway, NJ (United States); The Scripps Research Institute, La Jolla, CA (United States)

Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), funded by the US National Science Foundation, National Institutes of Health, and Department of Energy, has served structural biologists and Protein Data Bank (PDB) data consumers worldwide since 1999. RCSB PDB, a founding member of the Worldwide Protein Data Bank (wwPDB) partnership, is the US data center for the global PDB archive housing biomolecular structure data. RCSB PDB is also responsible for the security of PDB data, as the wwPDB‐designated Archive Keeper. Annually, RCSB PDB serves tens of thousands of three‐dimensional (3D) macromolecular structure data depositors (using macromolecular crystallography, nuclear magnetic resonance spectroscopy, electron microscopy, and micro‐electron diffraction) from all inhabited continents. RCSB PDB makes PDB data available from its research‐focused RCSB.org web portal at no charge and without usage restrictions to millions of PDB data consumers working in every nation and territory worldwide. In addition, RCSB PDB operates an outreach and education PDB101.RCSB.org web portal that was used by more than 800,000 educators, students, and members of the public during calendar year 2020. This invited Tools Issue contribution describes (i) how the archive is growing and evolving as new experimental methods generate ever larger and more complex biomolecular structures; (ii) the importance of data standards and data remediation in effective management of the archive and facile integration with more than 50 external data resources; and (iii) new tools and features for 3D structure analysis and visualization made available during the past year via the RCSB.org web portal.

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

Sponsoring Organization:: USDOE Office of Science (SC); National Science Foundation (NSF); National Cancer Institute (NCI); National Institute of Allergy and Infectious Diseases (NIAID); National Institutes of Health (NIH)

Grant/Contract Number:: SC0019749; DBI-1832184; R01GM133198; DE‐SC0019749

OSTI ID:: 1976373

Alternate ID(s):: OSTI ID: 1829368

Journal Information:: Protein Science, Vol. 31, Issue 1; ISSN 0961-8368

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

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Title: RCSB Protein Data Bank: Celebrating 50 years of the PDB with new tools for understanding and visualizing biological macromolecules in 3D

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