Literature DB >> 35643046

Incorporation of residual chemical shift anisotropy into the treatment of 15N pseudocontact shifts for structural refinement.

David A Nyenhuis1, Charles D Schwieters2, Nico Tjandra3.   

Abstract

Paramagnetic NMR experiments, including the pseudocontact shift experiment, have seen increasing use due to recently developed probes and labeling strategies. The pseudocontact shift experiment can provide valuable intra- or inter-molecular distance and orientation information. However, the use of 1H/13C or 1H/15N PCS data in structure calculations is currently complicated by the contribution of residual chemical shift anisotropy to the 13C or 15N datasets. Here, we present a corrected PCS energy term for the software package Xplor-NIH with the appropriate residual chemical shift anisotropy correction and show its suitability for model refinements of ubiquitin labeled at residue 57 with a Tm-M8-SPy tag. For data taken at 800 MHz, the improvement with the corrected energy term is sufficient to make the quality of the fit for the 15N dataset comparable to that of the 1H dataset, for which no correction is needed. The corrected energy term is expected to become more relevant with increased use of higher field instruments and as new paramagnetic probes with larger magnetic susceptibility tensors continue to be developed. Published by Elsevier Inc.

Entities:  

Keywords:  Pseudocontact shift; Residual chemical shift anisotropy; Structure refinement; Ubiquitin; Xplor-NIH

Mesh:

Substances:

Year:  2022        PMID: 35643046      PMCID: PMC9233152          DOI: 10.1016/j.jmr.2022.107213

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.734


  13 in total

1.  13C direct detected NMR increases the detectability of residual dipolar couplings.

Authors:  Stéphane Balayssac; Ivano Bertini; Claudio Luchinat; Giacomo Parigi; Mario Piccioli
Journal:  J Am Chem Soc       Date:  2006-11-29       Impact factor: 15.419

2.  Numbat: an interactive software tool for fitting Deltachi-tensors to molecular coordinates using pseudocontact shifts.

Authors:  Christophe Schmitz; Mitchell J Stanton-Cook; Xun-Cheng Su; Gottfried Otting; Thomas Huber
Journal:  J Biomol NMR       Date:  2008-06-24       Impact factor: 2.835

3.  DOTA-M8: An extremely rigid, high-affinity lanthanide chelating tag for PCS NMR spectroscopy.

Authors:  Daniel Häussinger; Jie-rong Huang; Stephan Grzesiek
Journal:  J Am Chem Soc       Date:  2009-10-21       Impact factor: 15.419

Review 4.  Magnetic susceptibility and paramagnetism-based NMR.

Authors:  Giacomo Parigi; Enrico Ravera; Claudio Luchinat
Journal:  Prog Nucl Magn Reson Spectrosc       Date:  2019-06-22       Impact factor: 9.795

5.  Weak alignment of paramagnetic proteins warrants correction for residual CSA effects in measurements of pseudocontact shifts.

Authors:  Michael John; Ah Young Park; Guido Pintacuda; Nicholas E Dixon; Gottfried Otting
Journal:  J Am Chem Soc       Date:  2005-12-14       Impact factor: 15.419

6.  Analysis of the isomer ratios of polymethylated-DOTA complexes and the implications on protein structural studies.

Authors:  Ana Christina L Opina; Madeleine Strickland; Yong-Sok Lee; Nico Tjandra; R Andrew Byrd; Rolf E Swenson; Olga Vasalatiy
Journal:  Dalton Trans       Date:  2016-02-09       Impact factor: 4.390

7.  Structure of the NPr:EINNtr Complex: Mechanism for Specificity in Paralogous Phosphotransferase Systems.

Authors:  Madeleine Strickland; Ann Marie Stanley; Guangshun Wang; Istvan Botos; Charles D Schwieters; Susan K Buchanan; Alan Peterkofsky; Nico Tjandra
Journal:  Structure       Date:  2016-11-10       Impact factor: 5.006

8.  Characterizing the magnetic susceptibility tensor of lanthanide-containing polymethylated-DOTA complexes.

Authors:  Madeleine Strickland; Charles D Schwieters; Christoph Göbl; Ana C L Opina; Marie-Paule Strub; Rolf E Swenson; Olga Vasalatiy; Nico Tjandra
Journal:  J Biomol NMR       Date:  2016-09-22       Impact factor: 2.835

9.  Protein structure determination from pseudocontact shifts using ROSETTA.

Authors:  Christophe Schmitz; Robert Vernon; Gottfried Otting; David Baker; Thomas Huber
Journal:  J Mol Biol       Date:  2012-01-18       Impact factor: 5.469

10.  Improved cross validation of a static ubiquitin structure derived from high precision residual dipolar couplings measured in a drug-based liquid crystalline phase.

Authors:  Alexander S Maltsev; Alexander Grishaev; Julien Roche; Michael Zasloff; Ad Bax
Journal:  J Am Chem Soc       Date:  2014-03-03       Impact factor: 15.419

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