Tunable paramagnetic relaxation enhancements by [Gd(DPA)3] 3- for protein structure analysis

Journal of Biomolecular NMR

Volumn 47, Issue 2, 2010, Pages 143-153

  Yagi, Hiromasa ^a   Loscha, Karin V ^a   Su, Xun Cheng ^a   Stanton Cook, Mitchell ^b   Huber, Thomas ^b   Otting, Gottfried ^a  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b UNIVERSITY OF QUEENSLAND   (Australia)

Author keywords

Lanthanide tags; Leucine zipper; NMR spectroscopy; Paramagnetic relaxation enhancements; Pseudocontact shifts

Indexed keywords

DIPICOLINIC ACID; GADOLINIUM; HOMODIMER; ION; LANTHANIDE; LEUCINE ZIPPER PROTEIN; METAL;

ACCURACY; ARTICLE; INFORMATION; MAGNETISM; NUCLEAR MAGNETIC RESONANCE; POSITION; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN QUATERNARY STRUCTURE; PROTEIN STRUCTURE; QUANTITATIVE ANALYSIS; STRUCTURE ANALYSIS;

BASIC-LEUCINE ZIPPER TRANSCRIPTION FACTORS; CHI-SQUARE DISTRIBUTION; CONTRAST MEDIA; ELECTRON SPIN RESONANCE SPECTROSCOPY; GADOLINIUM; LANTHANOID SERIES ELEMENTS; LEUCINE ZIPPERS; MODELS, MOLECULAR; NITROGEN ISOTOPES; ORGANOMETALLIC COMPOUNDS; PEPTIDES; PICOLINIC ACIDS; PROTEIN CONFORMATION; PROTEINS; SACCHAROMYCES CEREVISIAE PROTEINS;

EID: 77954690556     PISSN: 09252738     EISSN: 15735001     Source Type: Journal    
DOI: 10.1007/s10858-010-9416-x     Document Type: Article

References (34)

1. Arnesano F, Banci L, Piccioli M (2005) NMR structures of paramagnetic metalloproteins. Quart Rev Biophys 38:167-219
2. Baker RT, Catanzariti AM, Karunasekara Y, Soboleva TA, Sharwood R, Whitney S, Board PG (2005) Using deubiquitylating enzymes as research tools. Methods Enzymol 398:540-554
3. Balayssac S, Bertini I, Bhaumik A, Lelli M, Luchinat C (2008) Paramagnetic shifts in solid-state NMR of proteins to elicit structural information. Proc Natl Acad Sci 105:17284-17289
4. Benmelouka M, Borel A, Moriggi L, Helm L, Merbach AE (2007) Design of Gd(III)-based magnetic resonance imaging contrast agents: static and transient zero-field splitting contributions to the electronic relaxation and their impact on relaxivity. J Phys Chem B 111:832-840
5. Bertini I, Luchinat C, Parigi G, Pierattelli R (2008) NMR spectroscopy of paramagnetic metalloproteins. Dalton Trans 2008:3782-3790
6. Bloembergen N, Morgan LO (1961) Proton relaxation times in paramagnetic solutions. Effects of electron spin relaxation. J Chem Phys 34:842-850
7. Clore GM, Iwahara J (2009) Theory, practice, and applications of paramagnetic relaxation enhancement for the characterization of transient low-population states of biological macromolecules and their complexes. Chem Rev 109:4108-4139
8. Farrow NE, Muhandiram R, Singer AU, Pascal SM, Kay CM, Gish G, Shoelson SE, Pawson T, Forman-Kay JD, Kay LE (1994) Backbone dynamics of a free and a phosphopeptide-complexed Src homology 2 domain studied by 15N NMR relaxation. Biochemistry 33:5984-6003
9. Ferretti JA, Weiss GH (1989) One-dimensional nuclear Overhauser effects and peak intensity measurements. Meth Enzymol 176: 3-11
10. Guéron M (1975) Nuclear relaxation in macromolecules by paramagnetic ions-novel mechanism. J Magn Reson 19:249-273
11. Iwahara J, Tang C, Clore GM (2007) Practical aspects of 1H transverse paramagnetic relaxation enhancement measurements on macromolecules. J Magn Reson 184:185-195
12. Junius FK, Mackay JP, Bubb WA, Jensen SA, Weiss AS, King GF (1995) Nuclear magnetic resonance characterization of the Jun leucine-zipper domain-unusual properties of coiled-coil interfacial polar residues. Biochemistry 34:6164-6174
13. Koradi R, Billeter M, Wüthrich K (1996) MOLMOL: a program for display and analysis of macromolecular structures. J Mol Graphics 14:51-55
14. Kowalewski J, Nordenskiöld L, Benetis N, Westlund PO (1985) Theory of nuclear-spin relaxation in paramagnetic systems in solution. Prog NMR Spectr 17:141-185
15. Mackay JP, Shaw GL, King GF (1996) Backbone dynamics of the c- Jun leucine zipper: 15N NMR relaxation studies. Biochemistry 35:4867-4877
16. Man B, Su XC, Liang H, Simonsen S, Huber T, Messerle BA, Otting G (2010) 3-Mercapto-2,6-pyridinedicarboxylic acid: a small lanthanide-binding tag for protein studies by NMR spectroscopy. Chem Eur J 16:3827-3832
17. Matousek WM, Ciani B, Fitch CA, Garcia-Moreno B, Kammerer RA, Alexandrescu AT (2007) Electrostatic contributions to the stability of the GCN4 leucine zipper structure. J Mol Biol 374:206-219
18. O'Donoghue SI, King GF, Nilges M (1996) Calculation of symmetric multimer structures from NMR data using a priori knowledge of the monomer structure, co-monomer restraints, and interface mapping: the case of leucine zippers. J Biomol NMR 8:193-206
19. O'Shea EK, Rutkowski R, Kim PS (1989) Evidence that the leucine zipper is a coiled coil. Science 243:538-542
20. O'Shea EK, Klemm JD, Kim PS, Alber T (1991) X-ray structure of the GCN4 leucine zipper, a 2-stranded, parallel coiled coil. Science 254:539-544
21. Oas TG, McIntosh LP, O'Shea EK, Dahlquist FW, Kim PS (1990) Secondary structure of a leucine zipper determined by nuclear magnetic resonance spectroscopy. Biochemistry 29:2891-2894
22. Otting G (2008) Prospects for lanthanides in structural biology by NMR. J Biomol NMR 42:1-9
23. Pintacuda G, Otting G (2002) Identification of protein surfaces by NMR measurements with a paramagnetic Gd(III) chelate. J Am Chem Soc 124:372-373
24. Pintacuda G, Kaikkonen A, Otting G (2004a) Modulation of the distance dependence of paramagnetic relaxation enhancements by CSAxDSA cross-correlation. J Magn Reson 171:233-243
25. Pintacuda G, Moshref A, Leonchiks A, Sharipo A, Otting G (2004b) Site-specific labelling with a metal chelator for protein-structure refinement. J Biomol NMR 29:351-361
26. Pintacuda G, John M, Su XC, Otting G (2007) NMR structure determination of protein-ligand complexes by lanthanide labeling. Acc Chem Res 40:206-212
27. Schmitz C, Stanton-Cook MJ, Su XC, Otting G, Huber T (2008) Numbat: an interactive software tool for fitting Dv-tensors to molecular coordinates using pseudocontact shifts. J Biomol NMR 41:179-189
28. Solomon I (1955) Relaxation processes in a system of two spins. Phys Rev 99:559-565
29. Su XC, Otting G (2010) Paramagnetic labelling of proteins and oligonucleotides for NMR. J Biomol NMR 46:101-112
30. Su XC, Liang H, Loscha KV, Otting G (2009) [Ln(DPA)3]3- is a convenient paramagnetic shift reagent for protein NMR studies. J Am Chem Soc 131:10352-10353
31. Ubbink M (2009) The courtship of proteins: understanding the encounter complex. FEBS Lett 583:1060-1066
32. Vega AJ, Fiat D (1976) Nuclear relaxation processes of paramagnetic complexes. The slow-motion case. Mol Phys 31:347-355
33. Vold RL, Waugh JS, Klein MP, Phelps DE (1968) Measurement of spin relaxation in complex systems. J Chem Phys 48:3831-3832
34. Zweckstetter M, Schnell JR, Chou JJ (2005) Determination of the packing mode of the coiled-coil domain of cGMP-dependent protein kinase Ia in solution using charge-predicted dipolar couplings. J Am Chem Soc 127:11918-11919 (Pubitemid 41233700)