Literature DB >> 20506033

A device for the measurement of residual chemical shift anisotropy and residual dipolar coupling in soluble and membrane-associated proteins.

Yizhou Liu1, James H Prestegard.   

Abstract

Residual dipolar coupling (RDC) and residual chemical shift anisotropy (RCSA) report on orientational properties of a dipolar bond vector and a chemical shift anisotropy principal axis system, respectively. They can be highly complementary in the analysis of backbone structure and dynamics in proteins as RCSAs generally include a report on vectors out of a peptide plane while RDCs usually report on in-plane vectors. Both RDC and RCSA average to zero in isotropic solutions and require partial orientation in a magnetic field to become observable. While the alignment and measurement of RDC has become routine, that of RCSA is less common. This is partly due to difficulties in providing a suitable isotopic reference spectrum for the measurement of the small chemical shift offsets coming from RCSA. Here we introduce a device (modified NMR tube) specifically designed for accurate measurement of reference and aligned spectra for RCSA measurements, but with a capacity for RDC measurements as well. Applications to both soluble and membrane anchored proteins are illustrated.

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Year:  2010        PMID: 20506033      PMCID: PMC2941885          DOI: 10.1007/s10858-010-9427-7

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


  30 in total

1.  Evaluation of cross-correlation effects and measurement of one-bond couplings in proteins with short transverse relaxation times.

Authors:  G Kontaxis; G M Clore; A Bax
Journal:  J Magn Reson       Date:  2000-03       Impact factor: 2.229

2.  Structures of yeast ARF2 and ARL1: distinct roles for the N terminus in the structure and function of ARF family GTPases.

Authors:  J C Amor; J R Horton; X Zhu; Y Wang; C Sullards; D Ringe; X Cheng; R A Kahn
Journal:  J Biol Chem       Date:  2001-09-04       Impact factor: 5.157

3.  A simple apparatus for generating stretched polyacrylamide gels, yielding uniform alignment of proteins and detergent micelles.

Authors:  J J Chou; S Gaemers; B Howder; J M Louis; A Bax
Journal:  J Biomol NMR       Date:  2001-12       Impact factor: 2.835

4.  Insight into the CSA tensors of nucleobase carbons in RNA polynucleotides from solution measurements of residual CSA: towards new long-range orientational constraints.

Authors:  Alexandar L Hansen; Hashim M Al-Hashimi
Journal:  J Magn Reson       Date:  2006-01-23       Impact factor: 2.229

5.  Chemical-shift anisotropy measurements of amide and carbonyl resonances in a microcrystalline protein with slow magic-angle spinning NMR spectroscopy.

Authors:  Benjamin J Wylie; Lindsay J Sperling; Heather L Frericks; Gautam J Shah; W Trent Franks; Chad M Rienstra
Journal:  J Am Chem Soc       Date:  2007-04-11       Impact factor: 15.419

6.  Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport.

Authors:  Tomoo Shiba; Masato Kawasaki; Hiroyuki Takatsu; Terukazu Nogi; Naohiro Matsugaki; Noriyuki Igarashi; Mamoru Suzuki; Ryuichi Kato; Kazuhisa Nakayama; Soichi Wakatsuki
Journal:  Nat Struct Biol       Date:  2003-05

7.  Order matrix analysis of residual dipolar couplings using singular value decomposition.

Authors:  J A Losonczi; M Andrec; M W Fischer; J H Prestegard
Journal:  J Magn Reson       Date:  1999-06       Impact factor: 2.229

8.  Structure and membrane interaction of myristoylated ARF1.

Authors:  Yizhou Liu; Richard A Kahn; James H Prestegard
Journal:  Structure       Date:  2009-01-14       Impact factor: 5.006

9.  Chemical shift anisotropy of imino 15N nuclei in Watson-Crick base pairs from magic angle spinning liquid crystal NMR and nuclear spin relaxation.

Authors:  Alexander Grishaev; Lishan Yao; Jinfa Ying; Arthur Pardi; Ad Bax
Journal:  J Am Chem Soc       Date:  2009-07-15       Impact factor: 15.419

10.  Measurement of one and two bond N-C couplings in large proteins by TROSY-based J-modulation experiments.

Authors:  Yizhou Liu; James H Prestegard
Journal:  J Magn Reson       Date:  2009-06-17       Impact factor: 2.229

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  21 in total

Review 1.  Structural NMR of protein oligomers using hybrid methods.

Authors:  Xu Wang; Hsiau-Wei Lee; Yizhou Liu; James H Prestegard
Journal:  J Struct Biol       Date:  2010-11-11       Impact factor: 2.867

Review 2.  The use of residual dipolar coupling in studying proteins by NMR.

Authors:  Kang Chen; Nico Tjandra
Journal:  Top Curr Chem       Date:  2012

3.  Ensembles of a small number of conformations with relative populations.

Authors:  Vijay Vammi; Guang Song
Journal:  J Biomol NMR       Date:  2015-10-17       Impact factor: 2.835

4.  Nuclear Magnetic Resonance Insight into the Multiple Glycosaminoglycan Binding Modes of the Link Module from Human TSG-6.

Authors:  Younghee Park; Thomas A Jowitt; Anthony J Day; James H Prestegard
Journal:  Biochemistry       Date:  2016-01-06       Impact factor: 3.162

Review 5.  NMR studies of dynamic biomolecular conformational ensembles.

Authors:  Dennis A Torchia
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2014-11-28       Impact factor: 9.795

6.  Synthesis and O-Glycosidic Linkage Conformational Analysis of 13C-Labeled Oligosaccharide Fragments of an Antifreeze Glycolipid.

Authors:  Wenhui Zhang; Reagan Meredith; Mi-Kyung Yoon; Xiaocong Wang; Robert J Woods; Ian Carmichael; Anthony S Serianni
Journal:  J Org Chem       Date:  2019-01-29       Impact factor: 4.354

7.  Improvements to REDCRAFT: a software tool for simultaneous characterization of protein backbone structure and dynamics from residual dipolar couplings.

Authors:  Mikhail Simin; Stephanie Irausquin; Casey A Cole; Homayoun Valafar
Journal:  J Biomol NMR       Date:  2014-11-18       Impact factor: 2.835

8.  NMR detection and characterization of sialylated glycoproteins and cell surface polysaccharides.

Authors:  Adam W Barb; Darón I Freedberg; Marcos D Battistel; James H Prestegard
Journal:  J Biomol NMR       Date:  2011-09-27       Impact factor: 2.835

9.  Mollib: a molecular and NMR data analysis software.

Authors:  Justin L Lorieau
Journal:  J Biomol NMR       Date:  2017-10-14       Impact factor: 2.835

Review 10.  Spatial reorientation experiments for NMR of solids and partially oriented liquids.

Authors:  Rachel W Martin; John E Kelly; Kelsey A Collier
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2015-10-23       Impact factor: 9.795

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