Literature DB >> 9369014

Protein phi and psi dihedral restraints determined from multidimensional hypersurface correlations of backbone chemical shifts and their use in the determination of protein tertiary structures.

R D Beger1, P H Bolton.   

Abstract

The chemical shifts of the backbone atoms of proteins can be used to obtain restraints that can be incorporated into structure determination methods. Each chemical shift can be used to define a restraint and these restraints can be simultaneously used to define the local, secondary structure features. The global fold can be determined by a combined use of the chemical shift based restraints along with the long-range information present in the NOEs of partially deuterated proteins or the amide-amide NOEs but not from such limited NOE data sets alone. This approach has been demonstrated to be capable of determining the overall folding pattern of four proteins. This suggests that solution-state NMR methods can be extended to the structure determination of larger proteins by using the information present in the chemical shifts of the backbone atoms along with the data that can be obtained on a small number of labeled forms.

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Year:  1997        PMID: 9369014     DOI: 10.1023/a:1018302105638

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  81 in total

1.  Solution structure of the DNA-binding domain of a human papillomavirus E2 protein: evidence for flexible DNA-binding regions.

Authors:  H Liang; A M Petros; R P Meadows; H S Yoon; D A Egan; K Walter; T F Holzman; T Robins; S W Fesik
Journal:  Biochemistry       Date:  1996-02-20       Impact factor: 3.162

2.  Solution structure of the tetrameric minimum transforming domain of p53.

Authors:  W Lee; T S Harvey; Y Yin; P Yau; D Litchfield; C H Arrowsmith
Journal:  Nat Struct Biol       Date:  1994-12

3.  Secondary structure of uracil-DNA glycosylase inhibitor protein.

Authors:  S Balasubramanian; R D Beger; S E Bennett; D W Mosbaugh; P H Bolton
Journal:  J Biol Chem       Date:  1995-01-06       Impact factor: 5.157

4.  1H, 13C, and 15N NMR backbone assignments and secondary structure of human interferon-gamma.

Authors:  S Grzesiek; H Döbeli; R Gentz; G Garotta; A M Labhardt; A Bax
Journal:  Biochemistry       Date:  1992-09-08       Impact factor: 3.162

5.  Solution structure of the MutT enzyme, a nucleoside triphosphate pyrophosphohydrolase.

Authors:  C Abeygunawardana; D J Weber; A G Gittis; D N Frick; J Lin; A F Miller; M J Bessman; A S Mildvan
Journal:  Biochemistry       Date:  1995-11-21       Impact factor: 3.162

6.  Three-dimensional 15N-1H-1H and 15N-13C-1H nuclear-magnetic resonance studies of HPr a central component of the phosphoenolpyruvate-dependent phosphotransferase system from Escherichia coli. Assignment of backbone resonances.

Authors:  N A van Nuland; A A van Dijk; K Dijkstra; F H van Hoesel; R M Scheek; G T Robillard
Journal:  Eur J Biochem       Date:  1992-02-01

7.  Three-dimensional solution structure of the N-terminal receiver domain of NTRC.

Authors:  B F Volkman; M J Nohaile; N K Amy; S Kustu; D E Wemmer
Journal:  Biochemistry       Date:  1995-01-31       Impact factor: 3.162

8.  The NMR structure of the inhibited catalytic domain of human stromelysin-1.

Authors:  P R Gooley; J F O'Connell; A I Marcy; G C Cuca; S P Salowe; B L Bush; J D Hermes; C K Esser; W K Hagmann; J P Springer
Journal:  Nat Struct Biol       Date:  1994-02

9.  Refined solution structure of the oligomerization domain of the tumour suppressor p53.

Authors:  G M Clore; J Ernst; R Clubb; J G Omichinski; W M Kennedy; K Sakaguchi; E Appella; A M Gronenborn
Journal:  Nat Struct Biol       Date:  1995-04

10.  Unusual helix-containing greek keys in development-specific Ca(2+)-binding protein S. 1H, 15N, and 13C assignments and secondary structure determined with the use of multidimensional double and triple resonance heteronuclear NMR spectroscopy.

Authors:  S Bagby; T S Harvey; L E Kay; S G Eagle; S Inouye; M Ikura
Journal:  Biochemistry       Date:  1994-03-08       Impact factor: 3.162

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  20 in total

1.  13C(alpha) and 13C(beta) chemical shifts as a tool to delineate beta-hairpin structures in peptides.

Authors:  C M Santiveri; M Rico; M A Jiménez
Journal:  J Biomol NMR       Date:  2001-04       Impact factor: 2.835

2.  RefDB: a database of uniformly referenced protein chemical shifts.

Authors:  Haiyan Zhang; Stephen Neal; David S Wishart
Journal:  J Biomol NMR       Date:  2003-03       Impact factor: 2.835

3.  Determination of protein global folds using backbone residual dipolar coupling and long-range NOE restraints.

Authors:  Alexander W Giesen; Steve W Homans; Jonathan Miles Brown
Journal:  J Biomol NMR       Date:  2003-01       Impact factor: 2.835

Review 4.  Chemical shift tensor - the heart of NMR: Insights into biological aspects of proteins.

Authors:  Hazime Saitô; Isao Ando; Ayyalusamy Ramamoorthy
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2010-05-07       Impact factor: 9.795

5.  Secondary structural effects on protein NMR chemical shifts.

Authors:  Yunjun Wang
Journal:  J Biomol NMR       Date:  2004-11       Impact factor: 2.835

6.  Structural analysis of nanoscale self-assembled discoidal lipid bilayers by solid-state NMR spectroscopy.

Authors:  Ying Li; Aleksandra Z Kijac; Stephen G Sligar; Chad M Rienstra
Journal:  Biophys J       Date:  2006-08-11       Impact factor: 4.033

7.  A Bayesian-probability-based method for assigning protein backbone dihedral angles based on chemical shifts and local sequences.

Authors:  Jun Wang; Haiyan Liu
Journal:  J Biomol NMR       Date:  2006-12-07       Impact factor: 2.835

8.  Protein backbone chemical shifts predicted from searching a database for torsion angle and sequence homology.

Authors:  Yang Shen; Ad Bax
Journal:  J Biomol NMR       Date:  2007-07-04       Impact factor: 2.835

9.  The predictive accuracy of secondary chemical shifts is more affected by protein secondary structure than solvent environment.

Authors:  Marie-Laurence Tremblay; Aaron W Banks; Jan K Rainey
Journal:  J Biomol NMR       Date:  2010-03-06       Impact factor: 2.835

10.  A new model for chemical shifts of amide hydrogens in proteins.

Authors:  Seongho Moon; David A Case
Journal:  J Biomol NMR       Date:  2007-04-14       Impact factor: 2.835

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