Application of Solution nmr spectroscopy to Study Protein Dynamics

Acknowledgements 

C. G. thanks the Austrian Science Fund (FWF) through grant W901-B05 DK: Molecular 

Enzymology and is a grateful recipient of a DOC-fellowship of the Austrian Academy of Sciences at 

the Institute of Chemistry at the Karl-Franzens-University of Graz. This work was supported by the 

Intramural Research Program of National Heart, Lung, and Blood Institute of NIH to N. T. 

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References 

1.  Amzel, L.M.; Huang, C.-H.; Mandelker, D.; Lengauer, C.; Gabelli, S.B.; Vogelstein, B. Structural 

comparisons of class I phosphoinositide 3-kinases. 

Nat. Rev. Cancer 

2008

, 

8

, 665–669. 

2.  Gabelli, S.; Huang, C.-H.; Mandelker, D.; Schmidt-Kittler, O.; Vogelstein, B.; Amzel, L.M. 

Structural effects of oncogenic PI3K



 mutations. 

Curr. Top. Microbiol. Immunol. 

2010

, 

347

, 43–53. 

3.  Koshland, D.E. Application of a theory of enzyme specificity to protein synthesis. 

Proc. Natl. 

Acad. Sci. U. S. A. 

1958

, 

44

, 98–104. 

4.  Henzler-Wildman, K.; Kern, D. Dynamic personalities of proteins. 

Nature 

2007

, 

450

, 964–972. 

5.  Schotte, F.; Soman, J.; Olson, J.S.; Wulff, M.; Anfinrud, P.A. Picosecond time-resolved X-ray 

crystallography: Probing protein function in real time. 

J. Struct. Biol. 

2004

, 

147

, 235–246. 

6.  Cammarata, M.; Levantino, M.; Schotte, F.; Anfinrud, P.A.; Ewald, F.; Choi, J.; Cupane, A.; 

Wulff, M.; Ihee, H. Tracking the structural dynamics of proteins in solution using time-resolved 

wide-angle X-ray scattering. 

Nat. Meth. 

2008

, 

5

, 881–886. 

7.  Sprangers, R.; Kay, L.E. Quantitative dynamics and binding studies of the 20S proteasome by 

NMR. 

Nature 

2007

, 

445

, 618–622. 

8.  Sakakibara, D.; Sasaki, A.; Ikeya, T.; Hamatsu, J.; Hanashima, T.; Mishima, M.; Yoshimasu, M.; 

Hayashi, N.; Mikawa, T.; Walchli, M.; 

et al.

 Protein structure determination in living cells by  

in-cell NMR spectroscopy. 

Nature 

2009

, 

458

, 102–105. 

9.  Selenko, P.; Serber, Z.; Gadea, B.; Ruderman, J.; Wagner, G. Quantitative NMR analysis of the 

protein G B1 domain in Xenopus laevis egg extracts and intact oocytes. 

Proc. Natl. Acad. Sci. U. S. A. 

2006

, 

103

, 11904–11909. 

10.  Dmitri I Svergun, M.H.J.K. Small-angle scattering studies of biological macromolecules in 

solution. 

Rep. Progr. Phys. 

2003

, 

66

, 1735–1782. 

11.  Putnam, C.D.; Hammel, M.; Hura, G.L.; Tainer, J.A. X-ray solution scattering (SAXS) combined 

with crystallography and computation: Defining accurate macromolecular structures, 

conformations and assemblies in solution. 

Q. Rev. Biophys. 

2007

, 

40

, 191–285. 

12. Neuman, K.C.; Nagy, A. Single-molecule force spectroscopy: Optical tweezers, magnetic 

tweezers and atomic force microscopy. 

Nat. Meth. 

2008

, 

5

, 491–505. 

13.  Lubitz, W.; Reijerse, E.; van Gastel, M. [NiFe] and [FeFe] hydrogenases studied by advanced 

magnetic resonance techniques. 

Chem. Rev. 

2007

, 

107

, 4331–4365. 

14.  Perozo, E.; Marien, D.; Cortes; Cuello, L.G. Structural rearrangements underlying K+-channel 

activation gating. 

Science 

1999

, 

285

, 73–78. 

15.  Englander, S.W.; Kallenbach, N.R. Hydrogen exchange and structural dynamics of proteins and 

nucleic acids. 

Q. Rev. Biophys. 

1983

, 

16

, 521–655. 

16. Bai, Y.; Sosnick, T.; Mayne, L.; Englander, S. Protein folding intermediates: Native-state 

hydrogen exchange. 

Science 

1995

, 

269

, 192–197. 

17.  Krishna, M.M.G.; Lin, Y.; Rumbley, J.N.; Walter Englander, S. Cooperative omega loops in 

cytochrome c: Role in folding and function. 

J. Mol. Biol. 

2003

, 

331

, 29–36. 

18.  Krishna, M.M.G.; Hoang, L.; Lin, Y.; Englander, S.W. Hydrogen exchange methods to study 

protein folding. 

Methods 

2004

, 

34

, 51–64. 

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