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RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D

Now in its 52nd year of continuous operations, the Protein Data Bank (PDB) is the premiere open‐access global archive housing three‐dimensional (3D) biomolecular structure data. It is jointly managed by the Worldwide Protein Data Bank (wwPDB) partnership. The Research Collaboratory for Structural Bi...

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Autores principales: Burley, Stephen K., Bhikadiya, Charmi, Bi, Chunxiao, Bittrich, Sebastian, Chao, Henry, Chen, Li, Craig, Paul A., Crichlow, Gregg V., Dalenberg, Kenneth, Duarte, Jose M., Dutta, Shuchismita, Fayazi, Maryam, Feng, Zukang, Flatt, Justin W., Ganesan, Sai J., Ghosh, Sutapa, Goodsell, David S., Green, Rachel Kramer, Guranovic, Vladimir, Henry, Jeremy, Hudson, Brian P., Khokhriakov, Igor, 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, Webb, Benjamin, Westbrook, John D., Whetstone, Shamara, Young, Jasmine Y., Zalevsky, Arthur, Zardecki, Christine
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley & Sons, Inc. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9667899/
https://www.ncbi.nlm.nih.gov/pubmed/36281733
http://dx.doi.org/10.1002/pro.4482
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author Burley, Stephen K.
Bhikadiya, Charmi
Bi, Chunxiao
Bittrich, Sebastian
Chao, Henry
Chen, Li
Craig, Paul A.
Crichlow, Gregg V.
Dalenberg, Kenneth
Duarte, Jose M.
Dutta, Shuchismita
Fayazi, Maryam
Feng, Zukang
Flatt, Justin W.
Ganesan, Sai J.
Ghosh, Sutapa
Goodsell, David S.
Green, Rachel Kramer
Guranovic, Vladimir
Henry, Jeremy
Hudson, Brian P.
Khokhriakov, Igor
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
Webb, Benjamin
Westbrook, John D.
Whetstone, Shamara
Young, Jasmine Y.
Zalevsky, Arthur
Zardecki, Christine
author_facet Burley, Stephen K.
Bhikadiya, Charmi
Bi, Chunxiao
Bittrich, Sebastian
Chao, Henry
Chen, Li
Craig, Paul A.
Crichlow, Gregg V.
Dalenberg, Kenneth
Duarte, Jose M.
Dutta, Shuchismita
Fayazi, Maryam
Feng, Zukang
Flatt, Justin W.
Ganesan, Sai J.
Ghosh, Sutapa
Goodsell, David S.
Green, Rachel Kramer
Guranovic, Vladimir
Henry, Jeremy
Hudson, Brian P.
Khokhriakov, Igor
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
Webb, Benjamin
Westbrook, John D.
Whetstone, Shamara
Young, Jasmine Y.
Zalevsky, Arthur
Zardecki, Christine
author_sort Burley, Stephen K.
collection PubMed
description Now in its 52nd year of continuous operations, the Protein Data Bank (PDB) is the premiere open‐access global archive housing three‐dimensional (3D) biomolecular structure data. It is jointly managed by the Worldwide Protein Data Bank (wwPDB) partnership. The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is funded by the National Science Foundation, National Institutes of Health, and US Department of Energy and serves as the US data center for the wwPDB. RCSB PDB is also responsible for the security of PDB data in its role as wwPDB‐designated Archive Keeper. Every year, RCSB PDB serves tens of thousands of depositors of 3D macromolecular structure data (coming from macromolecular crystallography, nuclear magnetic resonance spectroscopy, electron microscopy, and micro‐electron diffraction). The RCSB PDB research‐focused web portal (RCSB.org) makes PDB data available at no charge and without usage restrictions to many millions of PDB data consumers around the world. The RCSB PDB training, outreach, and education web portal (PDB101.RCSB.org) serves nearly 700 K educators, students, and members of the public worldwide. This invited Tools Issue contribution describes how RCSB PDB (i) is organized; (ii) works with wwPDB partners to process new depositions; (iii) serves as the wwPDB‐designated Archive Keeper; (iv) enables exploration and 3D visualization of PDB data via RCSB.org; and (v) supports training, outreach, and education via PDB101.RCSB.org. New tools and features at RCSB.org are presented using examples drawn from high‐resolution structural studies of proteins relevant to treatment of human cancers by targeting immune checkpoints.
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spelling pubmed-96678992022-12-01 RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D Burley, Stephen K. Bhikadiya, Charmi Bi, Chunxiao Bittrich, Sebastian Chao, Henry Chen, Li Craig, Paul A. Crichlow, Gregg V. Dalenberg, Kenneth Duarte, Jose M. Dutta, Shuchismita Fayazi, Maryam Feng, Zukang Flatt, Justin W. Ganesan, Sai J. Ghosh, Sutapa Goodsell, David S. Green, Rachel Kramer Guranovic, Vladimir Henry, Jeremy Hudson, Brian P. Khokhriakov, Igor 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 Webb, Benjamin Westbrook, John D. Whetstone, Shamara Young, Jasmine Y. Zalevsky, Arthur Zardecki, Christine Protein Sci Tools for Protein Science Now in its 52nd year of continuous operations, the Protein Data Bank (PDB) is the premiere open‐access global archive housing three‐dimensional (3D) biomolecular structure data. It is jointly managed by the Worldwide Protein Data Bank (wwPDB) partnership. The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is funded by the National Science Foundation, National Institutes of Health, and US Department of Energy and serves as the US data center for the wwPDB. RCSB PDB is also responsible for the security of PDB data in its role as wwPDB‐designated Archive Keeper. Every year, RCSB PDB serves tens of thousands of depositors of 3D macromolecular structure data (coming from macromolecular crystallography, nuclear magnetic resonance spectroscopy, electron microscopy, and micro‐electron diffraction). The RCSB PDB research‐focused web portal (RCSB.org) makes PDB data available at no charge and without usage restrictions to many millions of PDB data consumers around the world. The RCSB PDB training, outreach, and education web portal (PDB101.RCSB.org) serves nearly 700 K educators, students, and members of the public worldwide. This invited Tools Issue contribution describes how RCSB PDB (i) is organized; (ii) works with wwPDB partners to process new depositions; (iii) serves as the wwPDB‐designated Archive Keeper; (iv) enables exploration and 3D visualization of PDB data via RCSB.org; and (v) supports training, outreach, and education via PDB101.RCSB.org. New tools and features at RCSB.org are presented using examples drawn from high‐resolution structural studies of proteins relevant to treatment of human cancers by targeting immune checkpoints. John Wiley & Sons, Inc. 2022-12 /pmc/articles/PMC9667899/ /pubmed/36281733 http://dx.doi.org/10.1002/pro.4482 Text en © 2022 The Protein Society. Open access.
spellingShingle Tools for Protein Science
Burley, Stephen K.
Bhikadiya, Charmi
Bi, Chunxiao
Bittrich, Sebastian
Chao, Henry
Chen, Li
Craig, Paul A.
Crichlow, Gregg V.
Dalenberg, Kenneth
Duarte, Jose M.
Dutta, Shuchismita
Fayazi, Maryam
Feng, Zukang
Flatt, Justin W.
Ganesan, Sai J.
Ghosh, Sutapa
Goodsell, David S.
Green, Rachel Kramer
Guranovic, Vladimir
Henry, Jeremy
Hudson, Brian P.
Khokhriakov, Igor
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
Webb, Benjamin
Westbrook, John D.
Whetstone, Shamara
Young, Jasmine Y.
Zalevsky, Arthur
Zardecki, Christine
RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D
title RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D
title_full RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D
title_fullStr RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D
title_full_unstemmed RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D
title_short RCSB Protein Data bank: Tools for visualizing and understanding biological macromolecules in 3D
title_sort rcsb protein data bank: tools for visualizing and understanding biological macromolecules in 3d
topic Tools for Protein Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9667899/
https://www.ncbi.nlm.nih.gov/pubmed/36281733
http://dx.doi.org/10.1002/pro.4482
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