Literature DB >> 23612994

Accurate measurements of the effects of deuteration at backbone amide positions on the chemical shifts of ¹⁵N, ¹³Cα, ¹³Cβ, ¹³CO and ¹Hα nuclei in proteins.

Daoning Zhang1, Vitali Tugarinov.   

Abstract

An approach towards accurate NMR measurements of deuterium isotope effects on the chemical shifts of all backbone nuclei in proteins ((15)N, (13)Cα, (13)CO, (1)Hα) and (13)Cβ nuclei arising from (1)H-to-D substitutions at amide nitrogen positions is described. Isolation of molecular species with a defined protonation/deuteration pattern at successive backbone nitrogen positions in the polypeptide chain allows quantifying all deuterium isotope shifts of these nuclei from the first to the fourth order. Some of the deuterium isotope shifts measured in the proteins ubiquitin and GB1 can be interpreted in terms of backbone geometry via empirical relationships describing their dependence on (φ; ψ) backbone dihedral angles. Because of their relatively large variability and notable dependence on the protein secondary structure, the two- and three-bond (13)Cα isotope shifts, (2)ΔCα(NiD) and (3)ΔCα(Ni+1D), and three-bond (13)Cβ isotope shifts, (3)ΔCβ(NiD), are useful reporters of the local geometry of the protein backbone.

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Year:  2013        PMID: 23612994     DOI: 10.1007/s10858-013-9733-y

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


  36 in total

1.  The penultimate rotamer library.

Authors:  S C Lovell; J M Word; J S Richardson; D C Richardson
Journal:  Proteins       Date:  2000-08-15

2.  Dynameomics: a multi-dimensional analysis-optimized database for dynamic protein data.

Authors:  Catherine Kehl; Andrew M Simms; Rudesh D Toofanny; Valerie Daggett
Journal:  Protein Eng Des Sel       Date:  2008-04-14       Impact factor: 1.650

3.  Identification by NMR of the binding surface for the histidine-containing phosphocarrier protein HPr on the N-terminal domain of enzyme I of the Escherichia coli phosphotransferase system.

Authors:  D S Garrett; Y J Seok; A Peterkofsky; G M Clore; A M Gronenborn
Journal:  Biochemistry       Date:  1997-04-15       Impact factor: 3.162

4.  Dynameomics: a comprehensive database of protein dynamics.

Authors:  Marc W van der Kamp; R Dustin Schaeffer; Amanda L Jonsson; Alexander D Scouras; Andrew M Simms; Rudesh D Toofanny; Noah C Benson; Peter C Anderson; Eric D Merkley; Steven Rysavy; Dennis Bromley; David A C Beck; Valerie Daggett
Journal:  Structure       Date:  2010-03-14       Impact factor: 5.006

5.  Editing of multidimensional NMR spectra of partially deuterated proteins. Measurement of amide deuterium isotope effects on the chemical shifts of protein backbone nuclei.

Authors:  A Meissner; J Briand; O W Sφrensen
Journal:  J Biomol NMR       Date:  1998-08       Impact factor: 2.835

6.  Carbon relaxation in 13Cα-Hα and 13Cα-Dα spin pairs as a probe of backbone dynamics in proteins.

Authors:  Hechao Sun; Dong Long; Rafael Brüschweiler; Vitali Tugarinov
Journal:  J Phys Chem B       Date:  2013-01-25       Impact factor: 2.991

7.  Local structural features around the C-terminal segment of Streptomyces subtilisin inhibitor studied by carbonyl carbon nuclear magnetic resonances three phenylalanyl residues.

Authors:  M Kainosho; H Nagao; T Tsuji
Journal:  Biochemistry       Date:  1987-02-24       Impact factor: 3.162

8.  4D 1H-13C NMR spectroscopy for assignments of alanine methyls in large and complex protein structures.

Authors:  Devon Sheppard; Chenyun Guo; Vitali Tugarinov
Journal:  J Am Chem Soc       Date:  2009-02-04       Impact factor: 15.419

9.  Deuterium spin probes of backbone order in proteins: 2H NMR relaxation study of deuterated carbon alpha sites.

Authors:  Devon Sheppard; Da-Wei Li; Rafael Brüschweiler; Vitali Tugarinov
Journal:  J Am Chem Soc       Date:  2009-11-04       Impact factor: 15.419

10.  Crystal polymorphism of protein GB1 examined by solid-state NMR spectroscopy and X-ray diffraction.

Authors:  Heather L Frericks Schmidt; Lindsay J Sperling; Yi Gui Gao; Benjamin J Wylie; John M Boettcher; Scott R Wilson; Chad M Rienstra
Journal:  J Phys Chem B       Date:  2007-12-04       Impact factor: 2.991

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  2 in total

1.  A NMR experiment for simultaneous correlations of valine and leucine/isoleucine methyls with carbonyl chemical shifts in proteins.

Authors:  Vitali Tugarinov; Vincenzo Venditti; G Marius Clore
Journal:  J Biomol NMR       Date:  2013-12-18       Impact factor: 2.835

2.  Solid-state NMR spectroscopy based atomistic view of a membrane protein unfolding pathway.

Authors:  Peng Xiao; David Bolton; Rachel A Munro; Leonid S Brown; Vladimir Ladizhansky
Journal:  Nat Commun       Date:  2019-08-27       Impact factor: 14.919

  2 in total

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