Rapid determination of protein folds using residual dipolar couplings
- 1 December 2000
- journal article
- Published by Elsevier BV in Journal of Molecular Biology
- Vol. 304 (3), 447-460
- https://doi.org/10.1006/jmbi.2000.4199
Abstract
Over the next few years, various genome projects will sequence many new genes and yield many new gene products. Many of these products will have no known function and little, if any, sequence homology to existing proteins. There is reason to believe that a rapid determination of a protein fold, even at low resolution, can aid in the identification of function and expedite the determination of structure at higher resolution. Recently devised NMR methods of measuring residual dipolar couplings provide one route to the determination of a fold. They do this by allowing the alignment of previously identified secondary structural elements with respect to each other. When combined with constraints involving loops connecting elements or other short-range experimental distance information, a fold is produced. We illustrate this approach to protein fold determination on (15)N-labeled Eschericia coli acyl carrier protein using a limited set of (15)N-(1)H and (1)H-(1)H dipolar couplings. We also illustrate an approach using a more extended set of heteronuclear couplings on a related protein, (13)C, (15)N-labeled NodF protein from Rhizobium leguminosarum.Keywords
This publication has 69 references indexed in Scilit:
- Structural genomics and its importance for gene function analysisNature Biotechnology, 2000
- From genes to protein structure and function: novel applications of computational approaches in the genomic eraTrends in Biotechnology, 2000
- Challenges at the frontiers of structural biologyTrends in Biochemical Sciences, 1999
- Structural genomics: keystone for a Human Proteome Project.Nature Structural & Molecular Biology, 1999
- Automated Peak Picking and Peak Integration in Macromolecular NMR Spectra Using AUTOPSYJournal of Magnetic Resonance, 1998
- Structure-based assignment of the biochemical function of a hypothetical protein: A test case of structural genomicsProceedings of the National Academy of Sciences of the United States of America, 1998
- 100,000 protein structures for the biologistNature Structural & Molecular Biology, 1998
- Mapping the Protein UniverseScience, 1996
- Surprising similarities in structure comparisonCurrent Opinion in Structural Biology, 1996
- Searching protein structure databases has come of ageProteins-Structure Function and Bioinformatics, 1994