Abstract A large number of amino acids other than the canonical amino acids can now be easily incorporated in vivo into proteins at genetically encoded positions. The technology requires an orthogonal tRNA/aminoacyl-tRNA synthetase pair specific for the unnatural amino acid that is added to the media while a TAG amber or frame shift codon specifies the incorporation site in the protein to be studied. These unnatural amino acids can be isotopically labeled and provide unique opportunities for site-specific labeling of proteins for NMR studies. In this perspective, we discuss these opportunities including new photocaged unnatural amino acids, outline usage of metal chelating and spin-labeled unnatural amino acids and expand the approach to in-cell NMR experiments.
Content Type Journal Article
Pages 89-100
DOI 10.1007/s10858-009-9365-4
Authors
David H. Jones, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
Susan E. Cellitti, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
Xueshi Hao, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
Qiong Zhang, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
Michael Jahnz, The Scripps Research Institute Department of Chemistry and the Skaggs Institute for Chemical Biology 10550 North Torrey Pines Road La Jolla CA 92037 USA
Daniel Summerer, The Scripps Research Institute Department of Chemistry and the Skaggs Institute for Chemical Biology 10550 North Torrey Pines Road La Jolla CA 92037 USA
Peter G. Schultz, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
Tetsuo Uno, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
Bernhard H. Geierstanger, Genomics Institute of the Novartis Research Foundation 10675 John Jay Hopkins Drive San Diego CA 92121-1125 USA
An efficient protocol for incorporation of an unnatural amino acid in perdeuterated recombinant proteins using glucose-based media
An efficient protocol for incorporation of an unnatural amino acid in perdeuterated recombinant proteins using glucose-based media
Abstract The in vivo incorporation of unnatural amino acids into proteins is a well-established technique requiring an orthogonal tRNA/aminoacyl-tRNA synthetase pair specific for the unnatural amino acid that is incorporated at a position encoded by a TAG amber codon. Although this technology provides unique opportunities to engineer protein structures, poor protein yields are usually obtained in deuterated media, hampering its application in the protein NMR...
nmrlearner
Journal club
0
02-21-2012 03:40 AM
Optimization of amino acid type-specific (13)C and (15)N labeling for the backbone assignment of membrane proteins by solution- and solid-state NMR with the UPLABEL algorithm.
Optimization of amino acid type-specific (13)C and (15)N labeling for the backbone assignment of membrane proteins by solution- and solid-state NMR with the UPLABEL algorithm.
Optimization of amino acid type-specific (13)C and (15)N labeling for the backbone assignment of membrane proteins by solution- and solid-state NMR with the UPLABEL algorithm.
J Biomol NMR. 2010 Dec 18;
Authors: Hefke F, Bagaria A, Reckel S, Ullrich SJ, Dötsch V, Glaubitz C, Güntert P
We present a computational method for finding optimal labeling patterns for the backbone...
nmrlearner
Journal club
0
12-21-2010 01:00 PM
Optimization of amino acid type-specific 13C and 15N labeling for the backbone assignment of membrane proteins by solution- and solid-state NMR with the UPLABEL algorithm
Optimization of amino acid type-specific 13C and 15N labeling for the backbone assignment of membrane proteins by solution- and solid-state NMR with the UPLABEL algorithm
Abstract We present a computational method for finding optimal labeling patterns for the backbone assignment of membrane proteins and other large proteins that cannot be assigned by conventional strategies. Following the approach of Kainosho and Tsuji (Biochemistry 21:6273â??6279 (1982)), types of amino acids are labeled with 13C or/and 15N such that cross peaks between 13CO(i â?? 1) and 15NH(i) result only for pairs...
nmrlearner
Journal club
0
12-21-2010 02:14 AM
[NMR paper] Amino acid-specific isotopic labeling and active site NMR studies of iron(II)- and ir
Amino acid-specific isotopic labeling and active site NMR studies of iron(II)- and iron(III)-superoxide dismutase from Escherichia coli.
Related Articles Amino acid-specific isotopic labeling and active site NMR studies of iron(II)- and iron(III)-superoxide dismutase from Escherichia coli.
J Biomol NMR. 2000 Aug;17(4):311-22
Authors: Sorkin DL, Miller AF
We have developed and employed multiple amino acid-specific isotopic labeling schemes to obtain definitive assignments for active site 1H NMR resonances of iron(II)- and iron(III)-superoxide...
nmrlearner
Journal club
0
11-19-2010 08:29 PM
[NMR paper] Assigning the NMR spectra of aromatic amino acids in proteins: analysis of two Ets po
Assigning the NMR spectra of aromatic amino acids in proteins: analysis of two Ets pointed domains.
Related Articles Assigning the NMR spectra of aromatic amino acids in proteins: analysis of two Ets pointed domains.
Biochem Cell Biol. 1998;76(2-3):379-90
Authors: Slupsky CM, Gentile LN, McIntosh LP
The measurement of interproton nuclear Overhauser enhancements (NOEs) and dihedral angle restraints of aromatic amino acids is a critical step towards determining the structure of a protein. The complete assignment of the resonances from aromatic...
nmrlearner
Journal club
0
11-17-2010 11:06 PM
[NMR paper] Determination of de novo synthesized amino acids in cellular proteins revisited by 13
Determination of de novo synthesized amino acids in cellular proteins revisited by 13C NMR spectroscopy.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_120x27.gif Related Articles Determination of de novo synthesized amino acids in cellular proteins revisited by 13C NMR spectroscopy.
NMR Biomed. 1997 Apr;10(2):50-8
Authors: Flögel U, Willker W, Leibfritz D
13C nuclear magnetic resonance spectroscopy was used to determine the absolute amounts to de novo...
nmrlearner
Journal club
0
08-22-2010 03:31 PM
[NMR paper] Involvement of various amino- and carboxyl-terminal residues in the active site of th
Involvement of various amino- and carboxyl-terminal residues in the active site of the histidine-containing protein HPr of the phosphoenolpyruvate-dependent phosphotransferase system of Staphylococcus carnosus: site-directed mutagenesis with the ptsH gene, biochemical characterization and NMR studies of the mutant proteins.
Related Articles Involvement of various amino- and carboxyl-terminal residues in the active site of the histidine-containing protein HPr of the phosphoenolpyruvate-dependent phosphotransferase system of Staphylococcus carnosus: site-directed mutagenesis with...
nmrlearner
Journal club
0
08-21-2010 11:53 PM
[NMR paper] Application of amino acid type-specific 1H- and 14N-labeling in a 2H-, 15N-labeled ba
Application of amino acid type-specific 1H- and 14N-labeling in a 2H-, 15N-labeled background to a 47 kDa homodimer: potential for NMR structure determination of large proteins.
Related Articles Application of amino acid type-specific 1H- and 14N-labeling in a 2H-, 15N-labeled background to a 47 kDa homodimer: potential for NMR structure determination of large proteins.
J Biomol NMR. 1999 May;14(1):79-83
Authors: Kelly MJ, Krieger C, Ball LJ, Yu Y, Richter G, Schmieder P, Bacher A, Oschkinat H
NMR investigations of larger macromolecules (> 20...