NMR resonance assignments for sparsely 15N labeled proteins

Journal of Biomolecular NMR

Volumn 38, Issue 3, 2007, Pages 213-219

  Feng, Lianmei ^a   Lee, Han Seung ^a   Prestegard, James H ^a  

^a UNIVERSITY OF GEORGIA   (United States)

Author keywords

Amide exchange; Assignments; Mass spectrometry; Proteins; Sparse labeling

Indexed keywords

AMIDE; DEUTERIUM; GALECTIN 3; NITROGEN; PEPTIDE; PHENYLALANINE; PROTON;

AMINO ACID SEQUENCE; ARTICLE; CHEMISTRY; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; NUCLEAR MAGNETIC RESONANCE; PROTEIN FOLDING; PROTEIN TERTIARY STRUCTURE;

AMIDES; AMINO ACID SEQUENCE; DEUTERIUM; GALECTIN 3; MOLECULAR SEQUENCE DATA; NITROGEN; NITROGEN ISOTOPES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PEPTIDES; PHENYLALANINE; PROTEIN FOLDING; PROTEIN STRUCTURE, TERTIARY; PROTONS;

EID: 34748896052     PISSN: 09252738     EISSN: 15735001     Source Type: Journal    
DOI: 10.1007/s10858-007-9159-5     Document Type: Article

References (34)

1. Apweiler R, Hermjakob H, Sharon N (1999) On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database. Biochimica Et Biophysica Acta-General Subjects 1473(1):4-8
2. Ardenkjaer-Larsen JH, Fridlund B, Gram A et al (2003) Increase in signal-to-noise ratio of >10, 000 times in liquid-state NMR. Proc Natl Acad Sci USA 100(18):10158-10163 (Pubitemid 37071849)
3. Bertini I, Del Bianco C, Gelis I et al (2004) Experimentally exploring the conformational space sampled by domain reorientation in calmodulin. Proc Natl Acad Sci USA 101(18):6841-6846 (Pubitemid 38596405)
4. Bougault C, Feng LM, Glushka J et al (2004) Quantitation of rapid proton-deuteron amide exchange using hadamard spectroscopy. J Biomol NMR 28(4):385-390 (Pubitemid 38268168)
5. Brey WW, Edison AS, Nast RE et al (2006) Design, construction, and validation of a 1-mm triple-resonance high-temperature-superconducting probe for NMR. J Magn Reson 179(2):290-293
6. Chen CY, Cheng CH, Chen YC et al (2006) Preparation of aminoacid-type selective isotope labeling of protein expressed in pichia pastoris. Proteins-Struct Funct Bioinform 62(1):279-287
7. Dempsey CE (2001) Hydrogen exchange in peptides and proteins using NMR-spectroscopy. Prog Nucl Mag Res Sp 39(2):135-170 (Pubitemid 32707384)
8. Eilers M, Reeves PJ, Ying WW et al (1999) Magic angle spinning NMR of the protonated retinylidene schiff base nitrogen in rhodopsin: Expression of n-15-lysine-and c-13-glycine-labeled opsin in a stable cell line. Proc Natl Acad Sci USA 96(2):487-492 (Pubitemid 29061235)
9. Eroglu S, Friedman G, Magin RL (2001) Estimate of losses and signal-to-noise ratio in, planar inductive micro-coil detectors used for NMR. IEEE Trans Magn 37(4):2787-2789 (Pubitemid 32969431)
10. Feng LM, Orlando R, Prestegard JH (2004) Mass spectrometry assisted assignment of NMR resonances in n-15 labeled proteins. J Am Chem Soc 126(44):14377-14379 (Pubitemid 39463620)
11. Feng LM, Orlando R, Prestegard JH (2006) Amide proton backexchange in deuterated peptides: Applications to MS and NMR analyses. Anal Chem 78(19):6885-6892 (Pubitemid 44522540)
12. Fiaux J, Bertelsen EB, Horwich AL et al (2004) Uniform and residuespecific 15N-labeling of proteins on a highly deuterated background. J Biomol NMR 29(3):289-297 (Pubitemid 38864827)
13. Fischer M W F, Losonczi JA, Weaver JL et al (1999) Domain orientation and dynamics in multidomain proteins from residual dipolar couplings. Biochemistry 38(28):9013-9022
14. Hamuro Y, Anand GS, Kim JS et al (2004) Mapping intersubunit interactions of the regulatory subunit (RIalpha) in the type I holoenzyme of protein kinase A by amide hydrogen/deuterium exchange mass spectrometry (DXMS). J Mol Biol 340(5):1185-1196 (Pubitemid 38968710)
15. Iglesias MM, Rabinovich GA, Ambrosio AL et al (1998) Purification of galectin-3 from ovine placenta: Developmentally regulated expression and immunological relevance. Glycobiology 8(1):59-65 (Pubitemid 28066361)
16. Iwahara J, Clore GM (2006) Detecting transient intermediates in macromolecular binding by paramagnetic NMR. Nature 440(7088):1227-1230
17. Joo CG, Hu KN, Bryant JA et al (2006) In situ temperature jump high-frequency dynamic nuclear polarization experiments: Enhanced sensitivity in liquid-state NMR spectroscopy. J Am Chem Soc 128(29):9428-9432 (Pubitemid 44117102)
18. Klammt C, Lohr F, Schafer B et al (2004) High level cell-free expression and specific labeling of integral membrane proteins. Eur J Biochem 271(3):568-580 (Pubitemid 38183631)
19. Klein-Seetharaman J, Reeves PJ, Loewen MC et al (2002) Solution NMR spectroscopy of [alpha-n-15]lysine-labeled rhodopsin: The single peak observed in both conventional and TROSY-type HSQC spectra is ascribed to Lys-339 in the carboxyl-terminal peptide sequence. Proc Natl Acad Sci USA 99(6):3452-3457 (Pubitemid 34252129)
20. Kupce E, Nishida T, Freeman R (2003) Hadamard NMR spectroscopy. Prog Nucl Magn Res Sp 42(3 4):95-122
21. Lustbader JW, Pollak S, Lobel L et al (1996) Three-dimensional structures of gonadotropins. Mol Cell Endocrinol 125(1 2):21-31 (Pubitemid 27037781)
22. Montelione GT, Zheng DY, Huang Y P J et al (2000) Protein NMR spectroscopy in structural genomics. Nat Struct Biol 7:982-985
23. Pervushin K, Riek R, Wider G et al (1997) Attenuated T2 relaxation by mutual cancellation of dipole-dipole coupling and chemical shift anisotropy indicates an avenue to NMR structures of very large biological macromolecules in solution. Proc Natl Acad Sci USA 94(23):12366-12371
24. Pintacuda G, Keniry MA, Huber T et al (2004) Fast structure-based assignment of 15N HSQC spectra of selectively 15N-labeled paramagnetic proteins. J Am Chem Soc 126(9):2963-2970 (Pubitemid 38314301)
25. Pintacuda G, Park AY, Keniry MA et al (2006) Lanthanide labeling offers fast NMR approach to 3D structure determinations of protein-protein complexes. J Am Chem Soc 128(11):3696-3702
26. Seetharaman J, Kanigsberg A, Slaaby R et al (1998) X-ray crystal structure of the human galectin-3 carbohydrate recognition domain at 2.1-A resolution. J Biol Chem 273(21):13047-13052 (Pubitemid 28246869)
27. Strauss A, Bitsch F, Fendrich G et al (2005) Efficient uniform isotope labeling of Abl kinase expressed in Baculovirus-infected insect cells. J Biomol NMR 31(4):343-349 (Pubitemid 41348910)
28. Tzakos AG, Grace C R R, Lukavsky PJ et al (2006) NMR techniques for very large proteins and rnas in solution. Ann Rev Biophys Biomol Struct 35:319-342 (Pubitemid 43877381)
29. Umemoto K, Leffler H (2001) Letter to the editor: Assignment of 1H, 15N and 13C resonances of the carbohydrate recognition domain of human galectin-3. J Biomol NMR 20(1):91-92 (Pubitemid 32519660)
30. Umemoto K, Leffler H, Venot A et al (2003) Conformational differences in liganded and unliganded states of galectin-3. Biochemistry 42(13):3688-3695 (Pubitemid 36402660)
31. Vinarov DA, Lytle BL, Peterson FC et al (2004) Cell-free protein production and labeling protocol for NMR-based structural proteomics. Nat Methods 1(2):149-153
32. Waugh DS (1996) Genetic tools for selective labeling of proteins with alpha-15N-amino acids. J Biomol NMR 8(2):184-192 (Pubitemid 126706787)
33. Wider G, Wuthrich K (1999) NMR spectroscopy of large molecules and multimolecular assemblies in solution. Curr Opin Struct Biol 9(5):594-601 (Pubitemid 29460586)
34. Zhang ZQ, Smith DL (1993) Determination of amide hydrogenexchange by mass-spectrometry - a new tool for protein-structure elucidation. Protein Sci 2(4):522-531 (Pubitemid 23119303)