Simultaneous measurement of protein one-bond residual dipolar couplings without increased resonance overlap

Journal of Magnetic Resonance

Volumn 174, Issue 2, 2005, Pages 245-253

  Vijayan, Vinesh ^a   Zweckstetter, Markus ^a  

^a MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

Author keywords

CBCA(CO)NH; NMR; Residual dipolar coupling; Scalar coupling; Ubiquitin; Unfolded protein

Indexed keywords

ANISOTROPY; ESCHERICHIA COLI; LIQUID CRYSTALS; MACROMOLECULES; NUCLEAR MAGNETIC RESONANCE; SPECTROSCOPIC ANALYSIS; SPECTRUM ANALYSIS;

CBCA(CO)NH; RESIDUAL DIPOLAR COUPLING; SCALAR COUPLING; UBIQUITIN; UNFOLD PROTEINS;

PROTEINS;

CARBON; DCUS PROTEIN, E COLI; ESCHERICHIA COLI PROTEIN; NITROGEN; PROTEIN KINASE; UBIQUITIN;

ARTICLE; CHEMISTRY; METHODOLOGY; NUCLEAR MAGNETIC RESONANCE; SIGNAL PROCESSING;

CARBON ISOTOPES; ESCHERICHIA COLI PROTEINS; NITROGEN ISOTOPES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN KINASES; SIGNAL PROCESSING, COMPUTER-ASSISTED; UBIQUITIN;

ESCHERICHIA COLI;

EID: 17644419660     PISSN: 10907807     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmr.2005.02.010     Document Type: Article

References (40)

1. A.A. Bothnerby D.M. Grant R.K. Harris Encyclopedia of Nuclear Magnetic Resonance 1996 Wiley Chichester 2932 2938
2. C. Gayathri, A.A. Bothnerby, P.C.M. Vanzijl, and C. Maclean Dipolar magnetic-field effects in nmr-spectra of liquids Chem. Phys. Lett. 87 1982 192 196
3. A. Saupe, and G. Englert Phys. Rev. Lett. 11 1963 462 464
4. R. Tycko, F.J. Blanco, and Y. Ishii Alignment of biopolymers in strained gels: a new way to create detectable dipole-dipole couplings in high-resolution biomolecular NMR J. Am. Chem. Soc. 122 2000 9340 9341
5. J. Sass, F. Cordier, A. Hoffmann, A. Cousin, J.G. Omichinski, H. Lowen, and S. Grzesiek Purple membrane induced alignment of biological macromolecules in the magnetic field J. Am. Chem. Soc. 121 1999 2047 2055
6. N. Tjandra, and A. Bax Direct measurement of distances and angles in biomolecules by NMR in a dilute liquid crystalline medium Science 278 1997 1111 1114
7. J.R. Tolman, J.M. Flanagan, M.A. Kennedy, and J.H. Prestegard Nuclear magnetic dipole interactions in field-oriented proteins-information for structure determination in solution Proc. Natl. Acad. Sci. USA 92 1995 9279 9283
8. Y.S. Jung, M. Sharma, and M. Zweckstetter Simultaneous assignment and structure determination of protein backbones by using NMR dipolar couplings Angew. Chem. Int. Ed. 43 2004 3479 3481
9. J.J. Chou, S.P. Li, and A. Bax Study of conformational rearrangement and refinement of structural homology models by the use of heteronuclear dipolar couplings J. Biomol. NMR 18 2000 217 227
10. F. Delaglio, G. Kontaxis, and A. Bax Protein structure determination using molecular fragment replacement and NMR dipolar couplings J. Am. Chem. Soc. 122 2000 2142 2143
11. J.C. Hus, D. Marion, and M. Blackledge Determination of protein backbone structure using only residual dipolar couplings J. Am. Chem. Soc. 123 2001 1541 1542
12. J.H. Prestegard, H. Valafar, J. Glushka, and F. Tian Nuclear magnetic resonance in the era of structural genomics Biochemistry 40 2001 8677 8685
13. M. Ottiger, F. Delaglio, and A. Bax Measurement of J and dipolar couplings from simplified two-dimensional NMR spectra J. Magn. Reson. 131 1998 373 378
14. E. de Alba, M. Suzuki, and N. Tjandra Simple multidimensional NMR experiments to obtain different types of one-bond dipolar couplings simultaneously J. Biomol. NMR 19 2001 63 67
15. P. Permi, P.R. Rosevear, and A. Annila A set of HNCO-based experiments for measurement of residual dipolar couplings in N-15, C-13, (H-2)-labeled proteins J. Biomol. NMR 17 2000 43 54
16. S. Heikkinen, P. Permi, and I. Kilpelainen Methods for the measurement of (1)J(NC alpha) and (2)J(NC alpha) from a simplified 2D C-13(alpha)-coupled N-15 SE-HSQC spectrum J. Magn. Reson. 148 2001 53 60
17. H.L. Wienk, M.M. Martinez, G.N. Yalloway, J.M. Schmidt, C. Perez, H. Ruterjans, and F. Lohr Simultaneous measurement of protein one-bond and two-bond nitrogen-carbon coupling constants using an internally referenced quantitative J-correlated [(15)N,(1)H]-TROSY-HNC experiment J. Biomol. NMR 25 2003 133 145
18. P. Permi Measurement of residual dipolar couplings from H-1(alpha) to C-13(alpha) and N-15 using a simple HNCA-based experiment J. Biomol. NMR 27 2003 341 349
19. K.Y. Ding, and A.M. Gronenborn Simultaneous and accurate determination of one-bond N-15-C-13' and two-bond H-1(N)-C-13' dipolar couplings J. Am. Chem. Soc. 125 2003 11504 11505
20. M. Salzmann, K. Pervushin, G. Wider, H. Senn, and K. Wuthrich TROSY in triple-resonance experiments: New perspectives for sequential NMR assignment of large proteins Proc. Natl. Acad. Sci. USA 95 1998 13585 13590
21. J.J. Chou, F. Delaglio, and A. Bax Measurement of one-bond N-15-C-13 ' dipolar couplings in medium sized proteins J. Biomol. NMR 18 2000 101 105
22. D.W. Yang, R.A. Venters, G.A. Mueller, W.Y. Choy, and L.E. Kay TROSY-based HNCO pulse sequences for the measurement of (HN)-H-1-N-15, N-15-(CO)-C-13, (HN)-H-1-(CO)-C-13, (CO)-C-13-C-13(alpha) and (HN)-H-1-C-13(alpha) dipolar couplings in N-15, C-13, H-2-labeled proteins J. Biomol. NMR 14 1999 333 343
23. M. Zweckstetter, and T.A. Holak Robust refocusing of C-13 magnetization in multidimensional NMR experiments by adiabatic fast passage pulses J. Biomol. NMR 15 1999 331 334
24. S. Grzesiek, and A. Bax Correlating backbone amide and side-chain resonances in larger proteins by multiple relayed triple resonance Nmr J. Am. Chem. Soc. 114 1992 6291 6293
25. J.J. Chou, and A. Bax Protein side-chain rotamers from dipolar couplings in a liquid crystalline phase J. Am. Chem. Soc. 123 2001 3844 3845
26. L. Pappalardo, I.G. Janausch, V. Vijayan, E. Zientz, J. Junker, W. Peti, M. Zweckstetter, G. Unden, and C. Griesinger The NMR structure of the sensory domain of the membranous two-component fumarate sensor (histidine protein kinase) DcuS of Escherichia coli J. Biol. Chem. 278 2003 39185 39188
27. M. Ruckert, and G. Otting Alignment of biological macromolecules in novel nonionic liquid crystalline media for NMR experiments J. Am. Chem. Soc. 122 2000 7793 7797
28. M.R. Hansen, L. Mueller, and A. Pardi Tunable alignment of macromolecules by filamentous phage yields dipolar coupling interactions Nat. Struct. Biol. 5 1998 1065 1074
29. M. Zweckstetter, and A. Bax Characterization of molecular alignment in aqueous suspensions of Pf1 bacteriophage J. Biomol. NMR 20 2001 365 377
30. F. Delaglio, S. Grzesiek, G.W. Vuister, G. Zhu, J. Pfeifer, and A. Bax Nmrpipe-a multidimensional spectral processing system based on unix pipes J. Biomol. NMR 6 1995 277 293
31. R.H. Contreras, and J.E. Peralta Angular dependence of spin-spin coupling constants Prog. Nucl. Magn. Reson. Spectrosc. 37 2000 321 425
32. G. Kontaxis, G.M. Clore, and A. Bax Evaluation of cross-correlation effects and measurement of one-bond couplings in proteins with short transverse relaxation times J. Magn. Reson. 143 2000 184 196
33. M. Sattler, J. Schleucher, and C. Griesinger Heteronuclear multidimensional NMR experiments for the structure determination of proteins in solution employing pulsed field gradients Prog. Nucl. Magn. Reson. Spectrosc. 34 1999 93 158
34. S. Vijaykumar, C.E. Bugg, and W.J. Cook Structure of ubiquitin refined at 1.8 Å Resolution J. Mol. Biol. 194 1987 531 544
35. M. Zweckstetter, and A. Bax Prediction of sterically induced alignment in a dilute liquid crystalline phase: aid to protein structure determination by NMR J. Am. Chem. Soc. 122 2000 3791 3792
36. K.V. Pervushin, G. Wider, and K. Wuthrich Single transition-to-single transition polarization transfer (ST2-PT) in N-15,H-1-TROSY J. Biomol. NMR 12 1998 345 348
37. E. Kupce, J. Boyd, and I.D. Campbell Short selective pulses for biochemical applications J. Magn. Reson. B 106 1995 300 303
38. M.S. Silver, R.I. Joseph, and D.I. Hoult Highly selective Pi/2 and Pi-pulse generation J. Magn. Reson. 59 1984 347 351
39. E. Kupce, and R. Freeman Compensation for spin-spin coupling effects during adiabatic pulses J. Magn. Reson. 127 1997 36 48
40. L.E. Kay, P. Keifer, and T. Saarinen Pure absorption gradient enhanced heteronuclear single quantum correlation spectroscopy with improved sensitivity J. Am. Chem. Soc. 114 1992 10663 10665