A protein NMR database has been designed and is being implemented. The database is intended to contain solution NMR results from proteins and peptides (larger than 12 residues). A relational database format has been chosen that indexes data by: primary journal citation, molecular species, sequence-related and atom-specific assignments, and experimental conditions. At present, all data are entered from the primary refereed literature. Examples are given of sample queries to the database. Possible distribution formats are discussed.
Sequence-Specific Mappingof the Interaction betweenUrea and Unfolded Ubiquitin from Ensemble Analysis of NMR and SmallAngle Scattering Data
Sequence-Specific Mappingof the Interaction betweenUrea and Unfolded Ubiquitin from Ensemble Analysis of NMR and SmallAngle Scattering Data
Jie-rong Huang, Frank Gabel, Malene Ringkjøbing Jensen, Stephan Grzesiek and Martin Blackledge
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja2118688/aop/images/medium/ja-2011-118688_0007.gif
Journal of the American Chemical Society
DOI: 10.1021/ja2118688
http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA
http://feeds.feedburner.com/~r/acs/jacsat/~4/u0K4iYUlStc
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[NMR paper] A modified strategy for sequence specific assignment of protein NMR spectra based on
A modified strategy for sequence specific assignment of protein NMR spectra based on amino acid type selective experiments.
Related Articles A modified strategy for sequence specific assignment of protein NMR spectra based on amino acid type selective experiments.
J Biomol NMR. 2005 Feb;31(2):115-28
Authors: Schubert M, Labudde D, Leitner D, Oschkinat H, Schmieder P
The determination of the three-dimensional structure of a protein or the study of protein-ligand interactions requires the assignment of all relevant nuclei as an initial step....
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[NMR paper] Two-dimensional 1H-NMR studies of maize lipid-transfer protein. Sequence-specific ass
Two-dimensional 1H-NMR studies of maize lipid-transfer protein. Sequence-specific assignment and secondary structure.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif Related Articles Two-dimensional 1H-NMR studies of maize lipid-transfer protein. Sequence-specific assignment and secondary structure.
Eur J Biochem. 1994 Jun 15;222(3):1047-54
Authors: Petit MC, Sodano P, Marion D, Ptak M
Correlation spectroscopy (COSY), total correlation...
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08-22-2010 03:33 AM
[NMR paper] Two-dimensional 1H-NMR studies of maize lipid-transfer protein. Sequence-specific ass
Two-dimensional 1H-NMR studies of maize lipid-transfer protein. Sequence-specific assignment and secondary structure.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif Related Articles Two-dimensional 1H-NMR studies of maize lipid-transfer protein. Sequence-specific assignment and secondary structure.
Eur J Biochem. 1994 Jun 15;222(3):1047-54
Authors: Petit MC, Sodano P, Marion D, Ptak M
Correlation spectroscopy (COSY), total correlation...
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08-22-2010 03:33 AM
[NMR paper] Sequence-specific 1H-NMR assignment and determination of the secondary structure of b
Sequence-specific 1H-NMR assignment and determination of the secondary structure of bovine heart fatty-acid-binding protein.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif Related Articles Sequence-specific 1H-NMR assignment and determination of the secondary structure of bovine heart fatty-acid-binding protein.
Eur J Biochem. 1992 Dec 15;210(3):901-10
Authors: Lücke C, Lassen D, Kreienkamp HJ, Spener F, Rüterjans H
The nearly complete...
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[NMR paper] Sequence-specific 1H NMR assignments and secondary structure of the streptococcal pro
Sequence-specific 1H NMR assignments and secondary structure of the streptococcal protein G B2-domain.
Related Articles Sequence-specific 1H NMR assignments and secondary structure of the streptococcal protein G B2-domain.
Biochemistry. 1992 Apr 14;31(14):3604-11
Authors: Orban J, Alexander P, Bryan P
Two-dimensional NMR spectroscopy has been used to obtain sequence-specific 1H NMR assignments for the IgG-binding B2-domain of streptococcal protein G. Secondary structure elements were identified from analysis of characteristic backbone-backbone...
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[NMR paper] A relational database for sequence-specific protein NMR data.
A relational database for sequence-specific protein NMR data.
Related Articles A relational database for sequence-specific protein NMR data.
J Biomol NMR. 1991 Sep;1(3):217-36
Authors: Seavey BR, Farr EA, Westler WM, Markley JL
A protein NMR database has been designed and is being implemented. The database is intended to contain solution NMR results from proteins and peptides (larger than 12 residues). A relational database format has been chosen that indexes data by: primary journal citation, molecular species, sequence-related and...
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08-21-2010 11:12 PM
Automated sequence-specific protein NMR assignment using the memetic algorithm MATCH
Automated sequence-specific protein NMR assignment using the memetic algorithm MATCH
Jochen Volk, Torsten Herrmann and Kurt Wüthrich
Journal of Biomolecular NMR; 2008; 41(3); pp 127 - 138
Abstract:
MATCH (Memetic Algorithm and Combinatorial Optimization Heuristics) is a new memetic algorithm for automated sequence-specific polypeptide backbone NMR assignment of proteins. MATCH employs local optimization for tracing partial sequence-specific assignments within a global, population-based search environment, where the simultaneous application of local and global optimization heuristics...
A relational database for sequence-specific protein NMR data.
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