Literature DB >> 12149447

De novo determination of peptide structure with solid-state magic-angle spinning NMR spectroscopy.

Chad M Rienstra1, Lisa Tucker-Kellogg, Christopher P Jaroniec, Morten Hohwy, Bernd Reif, Michael T McMahon, Bruce Tidor, Tomas Lozano-Pérez, Robert G Griffin.   

Abstract

The three-dimensional structure of the chemotactic peptide N-formyl-l-Met-l-Leu-l-Phe-OH was determined by using solid-state NMR (SSNMR). The set of SSNMR data consisted of 16 (13)C-(15)N distances and 18 torsion angle constraints (on 10 angles), recorded from uniformly (13)C,(15)N- and (15)N-labeled samples. The peptide's structure was calculated by means of simulated annealing and a newly developed protocol that ensures that all of conformational space, consistent with the structural constraints, is searched completely. The result is a high-quality structure of a molecule that has thus far not been amenable to single-crystal diffraction studies. The extensions of the SSNMR techniques and computational methods to larger systems appear promising.

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Year:  2002        PMID: 12149447      PMCID: PMC124901          DOI: 10.1073/pnas.152346599

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  22 in total

1.  Determination of three-dimensional structures of proteins from interproton distance data by hybrid distance geometry-dynamical simulated annealing calculations.

Authors:  M Nilges; G M Clore; A M Gronenborn
Journal:  FEBS Lett       Date:  1988-03-14       Impact factor: 4.124

2.  NMR determination of the torsion angle psi in alpha-helical peptides and proteins: the HCCN dipolar correlation experiment.

Authors:  Vladimir Ladizhansky; Mikhail Veshtort; Robert G Griffin
Journal:  J Magn Reson       Date:  2002-02       Impact factor: 2.229

3.  Backbone and side-chain 13C and 15N signal assignments of the alpha-spectrin SH3 domain by magic angle spinning solid-state NMR at 17.6 Tesla.

Authors:  J Pauli; M Baldus; B van Rossum; H de Groot; H Oschkinat
Journal:  Chembiochem       Date:  2001-04-02       Impact factor: 3.164

4.  Partial NMR assignments for uniformly (13C, 15N)-enriched BPTI in the solid state.

Authors:  A McDermott; T Polenova; A Bockmann; K W Zilm; E K Paulson; R W Martin; G T Montelione; E K Paulsen
Journal:  J Biomol NMR       Date:  2000-03       Impact factor: 2.835

5.  Frequency selective heteronuclear dipolar recoupling in rotating solids: accurate (13)C-(15)N distance measurements in uniformly (13)C,(15)N-labeled peptides.

Authors:  C P Jaroniec; B A Tounge; J Herzfeld; R G Griffin
Journal:  J Am Chem Soc       Date:  2001-04-18       Impact factor: 15.419

6.  Crystal structure, conformation, and potential energy calculations of the chemotactic peptide N-formyl-L-Met-L-Leu-L-Phe-OMe.

Authors:  E Gavuzzo; F Mazza; G Pochetti; A Scatturin
Journal:  Int J Pept Protein Res       Date:  1989-11

7.  Three-dimensional structure determination of a uniformly labeled molecule by frequency-selective dipolar recoupling under magic-angle spinning.

Authors:  K Nomura; K Takegoshi; T Terao; K Uchida; M Kainosho
Journal:  J Biomol NMR       Date:  2000-06       Impact factor: 2.835

8.  Methods for sequential resonance assignment in solid, uniformly 13C, 15N labelled peptides: quantification and application to antamanide.

Authors:  A Detken; E H Hardy; M Ernst; M Kainosho; T Kawakami; S Aimoto; B H Meier
Journal:  J Biomol NMR       Date:  2001-07       Impact factor: 2.835

9.  Heteronuclear 2D-correlations in a uniformly [13C, 15N] labeled membrane-protein complex at ultra-high magnetic fields.

Authors:  T A Egorova-Zachernyuk; J Hollander; N Fraser; P Gast; A J Hoff; R Cogdell; H J de Groot; M Baldus
Journal:  J Biomol NMR       Date:  2001-03       Impact factor: 2.835

10.  The structure-activity relations of synthetic peptides as chemotactic factors and inducers of lysosomal secretion for neutrophils.

Authors:  H J Showell; R J Freer; S H Zigmond; E Schiffmann; S Aswanikumar; B Corcoran; E L Becker
Journal:  J Exp Med       Date:  1976-05-01       Impact factor: 14.307

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  87 in total

1.  Accurate determination of interstrand distances and alignment in amyloid fibrils by magic angle spinning NMR.

Authors:  Marc A Caporini; Vikram S Bajaj; Mikhail Veshtort; Anthony Fitzpatrick; Cait E MacPhee; Michele Vendruscolo; Christopher M Dobson; Robert G Griffin
Journal:  J Phys Chem B       Date:  2010-10-28       Impact factor: 2.991

2.  High-resolution molecular structure of a peptide in an amyloid fibril determined by magic angle spinning NMR spectroscopy.

Authors:  Christopher P Jaroniec; Cait E MacPhee; Vikram S Bajaj; Michael T McMahon; Christopher M Dobson; Robert G Griffin
Journal:  Proc Natl Acad Sci U S A       Date:  2004-01-08       Impact factor: 11.205

3.  Exact solutions for internuclear vectors and backbone dihedral angles from NH residual dipolar couplings in two media, and their application in a systematic search algorithm for determining protein backbone structure.

Authors:  Lincong Wang; Bruce Randall Donald
Journal:  J Biomol NMR       Date:  2004-07       Impact factor: 2.835

Review 4.  Structure determination of membrane proteins by NMR spectroscopy.

Authors:  Stanley J Opella; Francesca M Marassi
Journal:  Chem Rev       Date:  2004-08       Impact factor: 60.622

5.  Three-dimensional deuterium-carbon correlation experiments for high-resolution solid-state MAS NMR spectroscopy of large proteins.

Authors:  Daniela Lalli; Paul Schanda; Anup Chowdhury; Joren Retel; Matthias Hiller; Victoria A Higman; Lieselotte Handel; Vipin Agarwal; Bernd Reif; Barth van Rossum; Umit Akbey; Hartmut Oschkinat
Journal:  J Biomol NMR       Date:  2011-10-25       Impact factor: 2.835

Review 6.  Structure determination of membrane proteins in five easy pieces.

Authors:  Francesca M Marassi; Bibhuti B Das; George J Lu; Henry J Nothnagel; Sang Ho Park; Woo Sung Son; Ye Tian; Stanley J Opella
Journal:  Methods       Date:  2011-09-20       Impact factor: 3.608

Review 7.  Modeling loop entropy.

Authors:  Gregory S Chirikjian
Journal:  Methods Enzymol       Date:  2011       Impact factor: 1.600

Review 8.  Investigating transport proteins by solid state NMR.

Authors:  Daniel Basting; Ines Lehner; Mark Lorch; Clemens Glaubitz
Journal:  Naunyn Schmiedebergs Arch Pharmacol       Date:  2006-02-28       Impact factor: 3.000

9.  Water Distribution, Dynamics, and Interactions with Alzheimer's β-Amyloid Fibrils Investigated by Solid-State NMR.

Authors:  Tuo Wang; Hyunil Jo; William F DeGrado; Mei Hong
Journal:  J Am Chem Soc       Date:  2017-04-21       Impact factor: 15.419

10.  Solid state NMR sequential resonance assignments and conformational analysis of the 2x10.4 kDa dimeric form of the Bacillus subtilis protein Crh.

Authors:  Anja Böckmann; Adam Lange; Anne Galinier; Sorin Luca; Nicolas Giraud; Michel Juy; Henrike Heise; Roland Montserret; François Penin; Marc Baldus
Journal:  J Biomol NMR       Date:  2003-12       Impact factor: 2.835

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