SAGA: rapid automatic mainchain NMR assignment for large proteins.
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.
College of Pharmacy, University of Michigan, Ann Arbor, MI 48109, USA. gcrippen@umich.edu
Gordon M
GM
Crippen
Aikaterini
A
Rousaki
Matthew
M
Revington
Yongbo
Y
Zhang
Erik R P
ER
Zuiderweg
D000465:Algorithms; D000595:Amino Acid Sequence; D000818:Animals; D003198:Computer Simulation; D001330:Electronic Data Processing; D006801:Humans; D009682:Magnetic Resonance Spectroscopy / Q000379:methods*; D008956:Models, Chemical; D008969:Molecular Sequence Data; D008970:Molecular Weight; D010449:Peptide Mapping; D011506:Proteins / Q000737:chemistry*; D012680:Sensitivity and Specificity; D020539:Sequence Analysis, Protein; D025801:Ubiquitin / Q000737:chemistry
D011506:Proteins; D025801:Ubiquitin