Trendspotting in the Protein Data Bank

Helen M Berman; Buvaneswari Coimbatore Narayanan; Luigi Di Costanzo; Shuchismita Dutta; Sutapa Ghosh; Brian P Hudson; Catherine L Lawson; Ezra Peisach; Andreas Prlić; Peter W Rose; Chenghua Shao; Huanwang Yang; Jasmine Young; Christine Zardecki

doi:10.1016/j.febslet.2012.12.029

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Trendspotting in the Protein Data Bank

Helen M Berman, Buvaneswari Coimbatore Narayanan, Luigi Di Costanzo, Shuchismita Dutta, Sutapa Ghosh, Brian P Hudson, Catherine L Lawson, Ezra Peisach, Andreas Prlić, Peter W Rose, …

FEBS letters, Vol.587(8), pp.1036-1045

04/17/2013

DOI: https://doi.org/10.1016/j.febslet.2012.12.029

PMCID: PMC4068610

PMID: 23337870

Abstract

Database

Nucleic acid

Protein

Trend

► Current number of PDB entries is predicted to increase 1.5-fold by the end of 2017. ► The structures deposited in the PDB are growing in complexity. ► 3DEM is an emerging method for determining structures of large assemblies. ► Protein–nucleic acid complexes drive the growing number of nucleic acid structures. The Protein Data Bank (PDB) was established in 1971 as a repository for the three dimensional structures of biological macromolecules. Since then, more than 85000 biological macromolecule structures have been determined and made available in the PDB archive. Through analysis of the corpus of data, it is possible to identify trends that can be used to inform us abou the future of structural biology and to plan the best ways to improve the management of the ever-growing amount of PDB data.

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Title: Trendspotting in the Protein Data Bank
Creators: Helen M Berman - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Buvaneswari Coimbatore Narayanan - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Luigi Di Costanzo - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Shuchismita Dutta - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Sutapa Ghosh - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Brian P Hudson - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Catherine L Lawson - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Ezra Peisach - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Andreas Prlić - San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA 92093-0743, USA
Peter W Rose - San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, Mailcode 0743, La Jolla, CA 92093-0743, USA
Chenghua Shao - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Huanwang Yang - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Jasmine Young - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Christine Zardecki - Department of Chemistry and Chemical Biology, Center for Integrative Proteomics Research, Rutgers, The State University of New Jersey, 174 Frelinghuysen Road, Piscataway, NJ 08854-8076, USA
Publication Details: FEBS letters, Vol.587(8), pp.1036-1045
Date published: 04/17/2013
Publisher: Elsevier B.V
Academic Unit: Chemistry and Chemical Biology (SAS); Institute for Quantitative Biomedicine
Language: English
Resource Type: Journal article
Identifiers: 991031665002604646