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Amino acid selective unlabeling for sequence specific resonance assignments in proteins

Krishnarjuna, B and Jaipuria, Garima and Thakur, Anushikha and D'Silva, Patrick and Atreya, Hanudatta S (2011) Amino acid selective unlabeling for sequence specific resonance assignments in proteins. In: Journal of Biomolecular NMR, 49 (1). pp. 39-51.

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Abstract

Sequence specific resonance assignment constitutes an important step towards high-resolution structure determination of proteins by NMR and is aided by selective identification and assignment of amino acid types. The traditional approach to selective labeling yields only the chemical shifts of the particular amino acid being selected and does not help in establishing a link between adjacent residues along the polypeptide chain, which is important for sequential assignments. An alternative approach is the method of amino acid selective `unlabeling' or reverse labeling, which involves selective unlabeling of specific amino acid types against a uniformly C-13/N-15 labeled background. Based on this method, we present a novel approach for sequential assignments in proteins. The method involves a new NMR experiment named, {(CO)-C-12 (i) -N-15 (i+1)}-filtered HSQC, which aids in linking the H-1(N)/N-15 resonances of the selectively unlabeled residue, i, and its C-terminal neighbor, i + 1, in HN-detected double and triple resonance spectra. This leads to the assignment of a tri-peptide segment from the knowledge of the amino acid types of residues: i - 1, i and i + 1, thereby speeding up the sequential assignment process. The method has the advantage of being relatively inexpensive, applicable to H-2 labeled protein and can be coupled with cell-free synthesis and/or automated assignment approaches. A detailed survey involving unlabeling of different amino acid types individually or in pairs reveals that the proposed approach is also robust to misincorporation of N-14 at undesired sites. Taken together, this study represents the first application of selective unlabeling for sequence specific resonance assignments and opens up new avenues to using this methodology in protein structural studies.

Item Type: Journal Article
Additional Information: Copyright of this article belongs to Springer.
Keywords: Selective unlabeling;Sequence specific resonance assignment; Isotope labeling;Protein structure
Department/Centre: Division of Biological Sciences > Biochemistry
Division of Chemical Sciences > NMR Research Centre (Formerly SIF)
Division of Chemical Sciences > Solid State & Structural Chemistry Unit
Others
Date Deposited: 07 Apr 2011 08:01
Last Modified: 07 Apr 2011 08:01
URI: http://eprints.iisc.ernet.in/id/eprint/36019

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