Literature DB >> 17036160

Sensitivity improvement for correlations involving arginine side-chain Nepsilon/Hepsilon resonances in multi-dimensional NMR experiments using broadband 15N 180 degrees pulses.

Junji Iwahara1, G Marius Clore.   

Abstract

Due to practical limitations in available 15N rf field strength, imperfections in 15N 180 degrees pulses arising from off-resonance effects can result in significant sensitivity loss, even if the chemical shift offset is relatively small. Indeed, in multi-dimensional NMR experiments optimized for protein backbone amide groups, cross-peaks arising from the Arg guanidino 15Nepsilon (approximately 85 ppm) are highly attenuated by the presence of multiple INEPT transfer steps. To improve the sensitivity for correlations involving Arg Nepsilon-Hepsilon groups, we have incorporated 15N broadband 180 degrees pulses into 3D 15N-separated NOE-HSQC and HNCACB experiments. Two 15N-WURST pulses incorporated at the INEPT transfer steps of the 3D 15N-separated NOE-HSQC pulse sequence resulted in a approximately 1.5-fold increase in sensitivity for the Arg Nepsilon-Hepsilon signals at 800 MHz. For the 3D HNCACB experiment, five 15N Abramovich-Vega pulses were incorporated for broadband inversion and refocusing, and the sensitivity of Arg1Hepsilon-15Nepsilon-13Cgamma/13Cdelta correlation peaks was enhanced by a factor of approximately 1.7 at 500 MHz. These experiments eliminate the necessity for additional experiments to assign Arg 1Hepsilon and 15Nepsilon resonances. In addition, the increased sensitivity afforded for the detection of NOE cross-peaks involving correlations with the 15Nepsilon/1Hepsilon of Arg in 3D 15N-separated NOE experiments should prove to be very useful for structural analysis of interactions involving Arg side-chains.

Entities:  

Mesh:

Substances:

Year:  2006        PMID: 17036160     DOI: 10.1007/s10858-006-9089-7

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


  9 in total

Review 1.  Applications of adiabatic pulses in biomolecular nuclear magnetic resonance.

Authors:  E Kupce
Journal:  Methods Enzymol       Date:  2001       Impact factor: 1.600

2.  Robust refocusing of 13C magnetization in multidimensional NMR experiments by adiabatic fast passage pulses.

Authors:  M Zweckstetter; T A Holak
Journal:  J Biomol NMR       Date:  1999-12       Impact factor: 2.835

3.  Detecting transient intermediates in macromolecular binding by paramagnetic NMR.

Authors:  Junji Iwahara; G Marius Clore
Journal:  Nature       Date:  2006-04-27       Impact factor: 49.962

4.  An optimized 3D NOESY-HSQC.

Authors:  S Talluri; G Wagner
Journal:  J Magn Reson B       Date:  1996-08

5.  Fully 13C-Refocused Multidimensional 13C-Edited Pulse Schemes Using Broadband Shaped Inversion and Refocusing Pulses

Authors: 
Journal:  J Magn Reson B       Date:  1996-07

6.  A constant-time (13)C- (1)H HSQC with uniform excitation over the complete (13)C chemical shift range.

Authors:  K Hallenga; G M Lippens
Journal:  J Biomol NMR       Date:  1995-01       Impact factor: 2.835

7.  Overcoming the overlap problem in the assignment of 1H NMR spectra of larger proteins by use of three-dimensional heteronuclear 1H-15N Hartmann-Hahn-multiple quantum coherence and nuclear Overhauser-multiple quantum coherence spectroscopy: application to interleukin 1 beta.

Authors:  D Marion; P C Driscoll; L E Kay; P T Wingfield; A Bax; A M Gronenborn; G M Clore
Journal:  Biochemistry       Date:  1989-07-25       Impact factor: 3.162

8.  Correlated bond rotations in interactions of arginine residues with ligand carboxylate groups in protein ligand complexes.

Authors:  P M Nieto; B Birdsall; W D Morgan; T A Frenkiel; A R Gargaro; J Feeney
Journal:  FEBS Lett       Date:  1997-03-17       Impact factor: 4.124

9.  Direct observation of enhanced translocation of a homeodomain between DNA cognate sites by NMR exchange spectroscopy.

Authors:  Junji Iwahara; G Marius Clore
Journal:  J Am Chem Soc       Date:  2006-01-18       Impact factor: 15.419

  9 in total
  8 in total

1.  Racemic phosphorothioate as a tool for NMR investigations of protein-DNA complexes.

Authors:  Ridvan Nepravishta; Channing C Pletka; Junji Iwahara
Journal:  J Biomol NMR       Date:  2020-07-18       Impact factor: 2.835

2.  pH-dependent random coil (1)H, (13)C, and (15)N chemical shifts of the ionizable amino acids: a guide for protein pK a measurements.

Authors:  Gerald Platzer; Mark Okon; Lawrence P McIntosh
Journal:  J Biomol NMR       Date:  2014-09-20       Impact factor: 2.835

Review 3.  NMR Methods for Characterizing the Basic Side Chains of Proteins: Electrostatic Interactions, Hydrogen Bonds, and Conformational Dynamics.

Authors:  Dan Nguyen; Chuanying Chen; B Montgomery Pettitt; Junji Iwahara
Journal:  Methods Enzymol       Date:  2018-09-27       Impact factor: 1.600

4.  Changes in conformational dynamics of basic side chains upon protein-DNA association.

Authors:  Alexandre Esadze; Chuanying Chen; Levani Zandarashvili; Sourav Roy; B Montgometry Pettitt; Junji Iwahara
Journal:  Nucleic Acids Res       Date:  2016-06-10       Impact factor: 16.971

Review 5.  Physicochemical Properties of Ion Pairs of Biological Macromolecules.

Authors:  Junji Iwahara; Alexandre Esadze; Levani Zandarashvili
Journal:  Biomolecules       Date:  2015-09-30

6.  Dual thio-digalactoside-binding modes of human galectins as the structural basis for the design of potent and selective inhibitors.

Authors:  Tung-Ju Hsieh; Hsien-Ya Lin; Zhijay Tu; Ting-Chien Lin; Shang-Chuen Wu; Yu-Yao Tseng; Fu-Tong Liu; Shang-Te Danny Hsu; Chun-Hung Lin
Journal:  Sci Rep       Date:  2016-07-15       Impact factor: 4.379

7.  A 13C-detected 15N double-quantum NMR experiment to probe arginine side-chain guanidinium 15Nη chemical shifts.

Authors:  Harold W Mackenzie; D Flemming Hansen
Journal:  J Biomol NMR       Date:  2017-11-10       Impact factor: 2.835

8.  Observation of Arginine Side-Chain Motions Coupled to the Global Conformational Exchange Process in Deubiquitinase A.

Authors:  Ashish Kabra; Efsita Rumpa; Ying Li
Journal:  ACS Omega       Date:  2022-03-08
  8 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.