SAGA: rapid automatic mainchain NMR assignment for large proteins |
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| Authors: | Gordon M. Crippen Aikaterini Rousaki Matthew Revington Yongbo Zhang Erik R. P. Zuiderweg |
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| Affiliation: | (1) College of Pharmacy, University of Michigan, Ann Arbor, MI 48109, USA;(2) LSA Biophysics, University of Michigan, Ann Arbor, MI 48109, USA;(3) Present address: Department of Chemistry and Biochemistry, University of Windsor, Windsor, ON, N9B 3P4, Canada;(4) Present address: Department of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, IL 60208, USA;(5) Department of Biological Chemistry, University of Michigan Medical School, Ann Arbor, MI 48109, USA |
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| Abstract: | Here we describe a new algorithm for automatically determining the mainchain sequential assignment of NMR spectra for proteins. Using only the customary triple resonance experiments, assignments can be quickly found for not only small proteins having rather complete data, but also for large proteins, even when only half the residues can be assigned. The result of the calculation is not the single best assignment according to some criterion, but rather a large number of satisfactory assignments that are summarized in such a way as to help the user identify portions of the sequence that are assigned with confidence, vs. other portions where the assignment has some correlated alternatives. Thus very imperfect initial data can be used to suggest future experiments. |
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