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J Biomol NMR. 2013 Jul;56(3):227-41. doi: 10.1007/s10858-013-9741-y. Epub 2013 Jun 2.

Protein backbone and sidechain torsion angles predicted from NMR chemical shifts using artificial neural networks.

Author information

1
Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Building 5, Room 126 NIH, Bethesda, MD 20892-0520, USA.

Abstract

A new program, TALOS-N, is introduced for predicting protein backbone torsion angles from NMR chemical shifts. The program relies far more extensively on the use of trained artificial neural networks than its predecessor, TALOS+. Validation on an independent set of proteins indicates that backbone torsion angles can be predicted for a larger, ≥90 % fraction of the residues, with an error rate smaller than ca 3.5 %, using an acceptance criterion that is nearly two-fold tighter than that used previously, and a root mean square difference between predicted and crystallographically observed (ϕ, ψ) torsion angles of ca 12º. TALOS-N also reports sidechain χ(1) rotameric states for about 50 % of the residues, and a consistency with reference structures of 89 %. The program includes a neural network trained to identify secondary structure from residue sequence and chemical shifts.

PMID:
23728592
PMCID:
PMC3701756
DOI:
10.1007/s10858-013-9741-y
[Indexed for MEDLINE]
Free PMC Article

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