Literature DB >> 23767407

A 13C labeling strategy reveals a range of aromatic side chain motion in calmodulin.

Vignesh Kasinath1, Kathleen G Valentine, A Joshua Wand.   

Abstract

NMR relaxation experiments often require site-specific isotopic enrichment schemes in order to allow for quantitative interpretation. Here we describe a new labeling scheme for site-specific (13)C-(1)H enrichment of a single ortho position of aromatic amino acid side chains in an otherwise perdeuterated background by employing a combination of [4-(13)C]erythrose and deuterated pyruvate during growth on deuterium oxide. This labeling scheme largely eliminates undesired contributions to (13)C relaxation and greatly simplifies the fitting of relaxation data using the Lipari-Szabo model-free formalism. This approach is illustrated with calcium-saturated vertebrate calmodulin and oxidized flavodoxin from Cyanobacterium anabaena . Analysis of (13)C relaxation in the aromatic groups of calcium-saturated calmodulin indicates a wide range of motion in the subnanosecond time regime.

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Year:  2013        PMID: 23767407      PMCID: PMC3726223          DOI: 10.1021/ja4001129

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  26 in total

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Authors:  R Ishima; A P Petkova; J M Louis; D A Torchia
Journal:  J Am Chem Soc       Date:  2001-06-27       Impact factor: 15.419

2.  Analysis of catalytic residues in enzyme active sites.

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Review 3.  Dominant forces in protein folding.

Authors:  K A Dill
Journal:  Biochemistry       Date:  1990-08-07       Impact factor: 3.162

4.  The functional capacity of the natural amino acids for molecular recognition.

Authors:  Sara Birtalan; Robert D Fisher; Sachdev S Sidhu
Journal:  Mol Biosyst       Date:  2010-04-09

5.  NMR investigations of the dynamics of the aromatic amino acid residues in the basic pancreatic trypsin inhibitor.

Authors:  K Wüthrich; G Wagner
Journal:  FEBS Lett       Date:  1975-02-01       Impact factor: 4.124

6.  Carbon relaxation in randomly fractionally 13C-enriched proteins.

Authors:  A J Wand; R J Bieber; J L Urbauer; R P McEvoy; Z Gan
Journal:  J Magn Reson B       Date:  1995-08

7.  Amino-aromatic interactions in proteins.

Authors:  S K Burley; G A Petsko
Journal:  FEBS Lett       Date:  1986-07-28       Impact factor: 4.124

Review 8.  Aromatic-aromatic interaction: a mechanism of protein structure stabilization.

Authors:  S K Burley; G A Petsko
Journal:  Science       Date:  1985-07-05       Impact factor: 47.728

9.  Electronic distributions within protein phenylalanine aromatic rings are reflected by the three-dimensional oxygen atom environments.

Authors:  K A Thomas; G M Smith; T B Thomas; R J Feldmann
Journal:  Proc Natl Acad Sci U S A       Date:  1982-08       Impact factor: 11.205

10.  Dissection of the pathway of molecular recognition by calmodulin.

Authors:  James K Kranz; Peter F Flynn; Ernesto J Fuentes; A Joshua Wand
Journal:  Biochemistry       Date:  2002-02-26       Impact factor: 3.162

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  27 in total

Review 1.  Probing conformational dynamics in biomolecules via chemical exchange saturation transfer: a primer.

Authors:  Pramodh Vallurupalli; Ashok Sekhar; Tairan Yuwen; Lewis E Kay
Journal:  J Biomol NMR       Date:  2017-03-19       Impact factor: 2.835

2.  Entropy in molecular recognition by proteins.

Authors:  José A Caro; Kyle W Harpole; Vignesh Kasinath; Jackwee Lim; Jeffrey Granja; Kathleen G Valentine; Kim A Sharp; A Joshua Wand
Journal:  Proc Natl Acad Sci U S A       Date:  2017-06-05       Impact factor: 11.205

3.  Aromatic Ring Dynamics, Thermal Activation, and Transient Conformations of a 468 kDa Enzyme by Specific 1H-13C Labeling and Fast Magic-Angle Spinning NMR.

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Journal:  J Am Chem Soc       Date:  2019-07-05       Impact factor: 15.419

4.  Characterizing Protein Hydration Dynamics Using Solution NMR Spectroscopy.

Authors:  Christine Jorge; Bryan S Marques; Kathleen G Valentine; A Joshua Wand
Journal:  Methods Enzymol       Date:  2018-12-04       Impact factor: 1.600

Review 5.  Emerging solution NMR methods to illuminate the structural and dynamic properties of proteins.

Authors:  Haribabu Arthanari; Koh Takeuchi; Abhinav Dubey; Gerhard Wagner
Journal:  Curr Opin Struct Biol       Date:  2019-07-19       Impact factor: 6.809

6.  A Semiautomated Assignment Protocol for Methyl Group Side Chains in Large Proteins.

Authors:  Jonggul Kim; Yingjie Wang; Geoffrey Li; Gianluigi Veglia
Journal:  Methods Enzymol       Date:  2015-09-26       Impact factor: 1.600

7.  Dynamic and thermodynamic response of the Ras protein Cdc42Hs upon association with the effector domain of PAK3.

Authors:  Veronica R Moorman; Kathleen G Valentine; Sabrina Bédard; Vignesh Kasinath; Jakob Dogan; Fiona M Love; A Joshua Wand
Journal:  J Mol Biol       Date:  2014-08-07       Impact factor: 5.469

8.  α-Ketoacids as precursors for phenylalanine and tyrosine labelling in cell-based protein overexpression.

Authors:  Roman J Lichtenecker; Katharina Weinhäupl; Walther Schmid; Robert Konrat
Journal:  J Biomol NMR       Date:  2013-11-22       Impact factor: 2.835

9.  Dynamics of Hydrophobic Core Phenylalanine Residues Probed by Solid-State Deuteron NMR.

Authors:  Liliya Vugmeyster; Dmitry Ostrovsky; Toni Villafranca; Janelle Sharp; Wei Xu; Andrew S Lipton; Gina L Hoatson; Robert L Vold
Journal:  J Phys Chem B       Date:  2015-11-12       Impact factor: 2.991

Review 10.  Measuring Entropy in Molecular Recognition by Proteins.

Authors:  A Joshua Wand; Kim A Sharp
Journal:  Annu Rev Biophys       Date:  2018-01-18       Impact factor: 12.981

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