Literature DB >> 2911559

Creation of a nuclear magnetic resonance data repository and literature database.

E L Ulrich1, J L Markley, Y Kyogoku.   

Abstract

We believe the need exists for an organized and accessible repository of protein nuclear magnetic resonance data. The structure and dynamics of hundreds of proteins are being investigated by NMR. NMR data currently are spread throughout the world and often are not published for lack of journal space. Difficulties in locating, obtaining, and correlating these data with protein structures limits their usefulness to the scientific community. In time, the data may become lost or ignored. To provide a collection point for the results of protein NMR studies and a uniform means of distributing these data, we propose that a data bank be created consisting of two databases: a comprehensive and thoroughly indexed database for the NMR literature and a data repository for the storage of extensive protein NMR data sets. Our current specifications for the types of information to be stored in the NMR databases and their organization for dissemination are defined. The design is intended to be flexible, capable of expanding to include new techniques, new forms of data, and biopolymers other than proteins. This is a proposal to the community of NMR spectroscopists. Only through the active cooperation and support of those in the field of NMR spectroscopy can the proposed data bank succeed.

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Year:  1989        PMID: 2911559

Source DB:  PubMed          Journal:  Protein Seq Data Anal        ISSN: 0931-9506


  13 in total

1.  The Protein Data Bank.

Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

Review 2.  Data deposition and annotation at the worldwide protein data bank.

Authors:  Shuchismita Dutta; Kyle Burkhardt; Jasmine Young; Ganesh J Swaminathan; Takanori Matsuura; Kim Henrick; Haruki Nakamura; Helen M Berman
Journal:  Mol Biotechnol       Date:  2008-12-10       Impact factor: 2.695

3.  A relational database for sequence-specific protein NMR data.

Authors:  B R Seavey; E A Farr; W M Westler; J L Markley
Journal:  J Biomol NMR       Date:  1991-09       Impact factor: 2.835

4.  Biomolecular NMR: Past and future.

Authors:  John L Markley; William Milo Westler
Journal:  Arch Biochem Biophys       Date:  2017-05-08       Impact factor: 4.013

5.  Applied and implied semantics in crystallographic publishing.

Authors:  Brian McMahon
Journal:  J Cheminform       Date:  2012-08-30       Impact factor: 5.514

6.  An automated system designed for large scale NMR data deposition and annotation: application to over 600 assigned chemical shift data entries to the BioMagResBank from the Riken Structural Genomics/Proteomics Initiative internal database.

Authors:  Naohiro Kobayashi; Yoko Harano; Naoya Tochio; Eiichi Nakatani; Takanori Kigawa; Shigeyuki Yokoyama; Steve Mading; Eldon L Ulrich; John L Markley; Hideo Akutsu; Toshimichi Fujiwara
Journal:  J Biomol NMR       Date:  2012-06-13       Impact factor: 2.835

Review 7.  Protein Data Bank (PDB): The Single Global Macromolecular Structure Archive.

Authors:  Stephen K Burley; Helen M Berman; Gerard J Kleywegt; John L Markley; Haruki Nakamura; Sameer Velankar
Journal:  Methods Mol Biol       Date:  2017

8.  A global analysis of NMR distance constraints from the PDB.

Authors:  Wim Vranken
Journal:  J Biomol NMR       Date:  2007-10-09       Impact factor: 2.835

9.  The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data.

Authors:  Helen Berman; Kim Henrick; Haruki Nakamura; John L Markley
Journal:  Nucleic Acids Res       Date:  2006-11-16       Impact factor: 16.971

10.  The NMR restraints grid at BMRB for 5,266 protein and nucleic acid PDB entries.

Authors:  Jurgen F Doreleijers; Wim F Vranken; Christopher Schulte; Jundong Lin; Jonathan R Wedell; Christopher J Penkett; Geerten W Vuister; Gert Vriend; John L Markley; Eldon L Ulrich
Journal:  J Biomol NMR       Date:  2009-10-07       Impact factor: 2.835

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