O' Sullivan and Jones have contributed equally to this article.
Article
You have full text access to this OnlineOpen article
Dynamics of a truncated prion protein, PrP(113–231), from 15N NMR relaxation: Order parameters calculated and slow conformational fluctuations localized to a distinct region
Article first published online: 29 DEC 2008
DOI: 10.1002/pro.44
Copyright © 2008 The Protein Society
Additional Information
How to Cite
O'Sullivan, D. B. D., Jones, C. E., Abdelraheim, S. R., Brazier, M. W., Toms, H., Brown, D. R. and Viles, J. H. (2009), Dynamics of a truncated prion protein, PrP(113–231), from 15N NMR relaxation: Order parameters calculated and slow conformational fluctuations localized to a distinct region. Protein Science, 18: 410–423. doi: 10.1002/pro.44
Publication History
- Issue published online: 30 JAN 2009
- Article first published online: 29 DEC 2008
- Accepted manuscript online: 29 DEC 2008 12:00AM EST
- Manuscript Accepted: 30 OCT 2008
- Manuscript Revised: 2 OCT 2008
- Manuscript Received: 24 JUN 2008
Funded by
- BBSRC
References
- 1( 1998) Prions. Proc Natl Acad Sci USA 95: 13363–13383.
- 2, , , , , , ( 2004) Synthetic mammalian prions. Science 305: 673–676.
- 3, , , , , , ( 2005) The most infectious prion protein particles. Nature 437: 257–261.
- 4, , , , , ( 1996) NMR structure of the mouse prion protein domain PrP(121–321). Nature 382: 180–182.
- 5, , , , , , , , ( 1997) Structure of the recombinant full-length hamster prion protein PrP(29–231): the N terminus is highly flexible. Proc Natl Acad Sci USA 94: 13452–13457.
- 6, , , , , , , , , , ( 1997) Solution structure of a 142-residue recombinant prion protein corresponding to the infectious fragment of the scrapie isoform. Proc. Natl. Acad. Sci. USA 94: 10086–10091.
- 7, , , , , ( 1998) Prion protein NMR structure and familial human spongiform encephalopathies. Proc Natl Acad Sci USA 95: 11667–11672.
- 8, , , , , , , , , ( 2000) NMR solution structure of the human prion protein. Proc Natl Acad Sci USA 97: 145–150.
- 9
- 10, , , , ( 2005) Prion protein NMR structures of chickens, turtles, and frogs. Proc Natl Acad Sci USA 102: 651–655.
- 11, , , , ( 2005) Prion protein NMR structures of elk and of mouse/elk hybrids. Proc Natl Acad Sci USA 102: 646–650.
- 12, , , , , , , , , , ( 2005) Prion protein NMR structures of cats, dogs, pigs, and sheep. Proc Natl Acad Sci USA 102: 640–645.
- 13, , , ( 2007) Molecular architecture of human prion protein amyloid: a parallel, in-register β-structure. Proc Natl Acad Sci USA 104: 18946–18951.
- 14, , ( 2007) β-sheet core of human prion protein amyloid fibrils as determined by hydrogen/deuterium exchange. Proc Natl Acad Sci USA 104: 1510–1515.
- 15, , , , , , ( 2001a) Local structural plasticity of the prion protein. Analysis of NMR relaxation dynamics. Biochemistry 40: 2743–2753.
- 16, , , , , , , , , , , , ( 1997) The cellular prion protein binds copper in vivo. Nature 390: 684–687.
- 17, , , , , ( 1999) Copper binding to the prion protein: structural implications of four identical cooperative binding sites. Proc Natl Acad Sci USA 96: 2042–2047.
- 18, ( 2003) Copper binding to the octarepeats of the prion protein. Affinity, specificity, folding, and cooperativity: insights from circular dichroism. J Biol Chem 278: 6795–6802.
- 19, , , ( 2004) Preferential Cu2+ coordination by His96 and His111 Induces {β}-sheet formation in the unstructured amyloidogenic region of the prion protein. J Biol Chem 279: 32018–32027.
- 20, , , , ( 2005) Probing copper2+ binding to the prion protein using diamagnetic nickel2+ and 1H NMR: the unstructured N terminus facilitates the coordination of six copper2+ ions at physiological concentrations. J Mol Biol 346: 1393–1407.
- 21, , , , ( 2008) Deconvoluting the Cu2+ binding modes of full-length prion protein. J Biol Chem 283: 1870–1881.
- 22( 2003) The octapeptide repeats in mammalian prion protein constitute a pH-dependent folding and aggregation site. J Mol Biol 334: 477–488.
- 23, , , , ( 2002) Pathway complexity of prion protein assembly into amyloid. J Biol Chem 277: 21140–21148.
- 24, , , , ( 2000) Aggregation and fibrillization of the recombinant human prion protein huPrP90-231. Biochemistry 39: 424–431.
- 25, , , ( 2001) Folding of prion protein to its native α-helical conformation is under kinetic control. J Biol Chem 276: 19687–19690.
- 26, , ( 2001) On the mechanism of α-helix to β-sheet transition in the recombinant prion protein. Biochemistry 40: 6982–6987.
- 27, , , ( 2007) Oligomerization of the human prion protein proceeds via a molten globule intermediate. J Biol Chem 282: 6300–6307.
- 28, , , , , , , ( 2007) NMR characterization of the pH 4 β-intermediate of the prion protein: the N-terminal half of the protein remains unstructured and retains a high degree of flexibility. Biochem J 401: 533–540.
- 29, , ( 1996) Theory and practice of nuclear spin relaxation in proteins. Annu Rev Phys Chem 47: 243–282.
- 30( 1997) Probing molecular motion by NMR. Curr Opin Struct Biol 7: 732–737.
- 31, , , , , , , , ( 1999) Solution structure of Syrian hamster prion protein rPrP(90–231). Biochemistry 38: 5362–5377.
- 32, , , ( 2004) Slow conformational dynamics in the hamster prion protein. Biochemistry 43: 4439–4446.
- 33, , ( 2001) Toxicity of novel C-terminal prion protein fragments and peptides harbouring disease-related C-terminal mutations. Eur J Biochem 268: 6155–6164.Direct Link:
- 34, , , ( 1995a) Comparison of the backbone dynamics of a folded and an unfolded SH3 domain existing in equilibrium in aqueous buffer. Biochemistry 34: 868–878.
- 35, ( 1995) Frequency spectrum of NH bonds in eglin c from spectral density mapping at multiple fields. Biochemistry 34: 16733–16752.
- 36, , , ( 1996) Internal mobility in the partially folded DNA binding and dimerization domains of GAL4: NMR analysis of the N-H spectral density functions. Biochemistry 35: 2674–2686.
- 37, , , ( 1999) Temperature dependence of intramolecular dynamics of the basic leucine zipper of GCN4: implications for the entropy of association with DNA. J Mol Biol 285: 2133–2146.
- 38, , , , ( 1992) Backbone dynamics of calmodulin studied by 15N relaxation using inverse detected two-dimensional NMR spectroscopy: the central helix is flexible. Biochemistry 31: 5269–5278.
- 39, , , ( 1996) Anisotropic rotational diffusion of perdeuterated HIV protease from 15N NMR relaxation measurements at two magnetic fields. J Biomol NMR 8: 273–284.
- 40, ( 1982) Model-free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 2. Analysis of experimental results. J Am Chem Soc 104: 4559–4570.
- 41, ( 1982) Model-free approach to the interpretation of nuclear magnetic resonance relaxation in macromolecules. 1. Theory and range of validity. J Am Chem Soc 104: 4546–4559.
- 42, , ( 1995) Backbone dynamics of Escherichia coli ribonuclease HI: correlations with structure and function in an active enzyme. J Mol Biol 246: 144–163.
- 43, , , ( 1997) Characterization of the backbone dynamics of folded and denatured states of an SH3 domain. Biochemistry 36: 2390–2402.
- 44, ( 1999) Dynamics of unfolded proteins: Incorporation of distributions of correlation times in the model free analysis of NMR relaxation data. J Am Chem Soc 121: 8671–8672.
- 45, ( 2001) Anisotropic rotational diffusion in model-free analysis for a ternary DHFR complex. J Biomol NMR 19: 209–230.
- 46, , , ( 2004) Evidence for assembly of prions with left-handed β-helices into trimers. Proc Natl Acad Sci USA 101: 8342–8347.
- 47, , , , , , , , , , , ( 1997) A conformational transition at the N terminus of the prion protein features in formation of the scrapie isoform. J Mol Biol 273: 614–622.
- 48, , , ( 1988) Purification and properties of the cellular and scrapie hamster prion proteins. Eur J Biochem 176: 21–30.Direct Link:
- 49, , , , , , , ( 1999) Structural mobility of the human prion protein probed by backbone hydrogen exchange. Nat Struct Biol 6: 740–743.
- 50, , , , ( 2002) Differences between the prion protein and its homolog Doppel: a partially structured state with implications for scrapie formation. J Mol Biol 316: 807–815.
- 51, , ( 1999) Extremely rapid folding of the C-terminal domain of the prion protein without kinetic intermediates. Nat Struct Biol 6: 550– 553.
- 52, , , , , , , , ( 2005) Definable equilibrium states in the folding of human prion protein. Biochemistry 44: 16649–16657.
- 53, , , , , , ( 2002) Locally disordered conformer of the hamster prion protein: a crucial intermediate to PrPSc? Biochemistry 41: 12277–12283.
- 54, , , , , ( 2003) Nucleation-dependent conformational conversion of the y145stop variant of human prion protein: structural clues for prion propagation. Proc Natl Acad Sci USA 100: 12069–12074.
- 55, , , , ( 1996) Molecular analysis of prion strain variation and the aetiology of ‘new variant’ CJD. Nature 383: 685–690.
- 56, , , , , , , ( 1997) Evidence for protein X binding to a discontinuous epitope on the cellular prion protein during scrapie prion propagation. Proc Natl Acad Sci USA 94: 10069–10074.
- 57, , , , , , ( 2001) Two different neurodegenerative diseases caused by proteins with similar structures. Proc Natl Acad Sci USA 98: 2352–2357.
- 58, , , ( 2003) NMR structure of a variant human prion protein with two disulfide bridges. J Mol Biol 326: 225–234.
- 59, , , , , , , , , , , , ( 2007) Atomic structures of amyloid cross-beta spines reveal varied steric zippers. Nature 447: 453–457.
- 60, , , ( 1999) Selective oxidation of methionine residues in prion proteins. Biochem Biophys Res Commun 259: 352–355.
- 61, , ( 1992) Pure absorption gradient enhanced heteronuclear single quantum correlation spectroscopy with improved sensitivity. J Am Chem Soc 114: 10663–10665.
- 62, , , ( 1994) Backbone 1H and 15N resonance assignments of the N-terminal SH3 domain of drk in folded and unfolded states using enhanced-sensitivity pulsed field gradient NMR techniques. J Biomol NMR 4: 845–858.
- 63, , , , ( 1995) The program XEASY for computer-supported NMR spectral analysis of biological macromolecules. J Biomol NMR 5: 1–10.
- 64, , , , , , , , , ( 1994) Backbone dynamics of a free and phosphopeptide-complexed Src homology 2 domain studied by 15N NMR relaxation. Biochemistry 33: 5984–6003.
- 65, , , , , , , ( 2001b) Potential bias in NMR relaxation data introduced by peak intensity analysis and curve fitting methods. J Biomol NMR 21: 1–9.
- 66, , , , , ( 1992) Backbone dynamics of the Bacillus subtilis glucose permease IIA domain determined from 15N NMR relaxation measurements. Biochemistry 31: 4394–4406.
- 67, , , , ( 1995b) Spectral density function mapping using 15N relaxation data exclusively. J Biomol NMR 6: 153–162.
- 68, ( 2003) The use of model selection in the model-free analysis of protein dynamics. J Biomol NMR 25: 25–39.

1469-896X/asset/olbannerleft.gif?v=1&s=d218899ae53b2862ab119790ed504b8d72122fb3)
1469-896X/asset/olbannerright.gif?v=1&s=59470eb9a1d9b7b13b1be75e9445e6c46ee2214f)
