Literature DB >> 16873549

Quantitative NMR analysis of the protein G B1 domain in Xenopus laevis egg extracts and intact oocytes.

Philipp Selenko1, Zach Serber, Bedrick Gadea, Joan Ruderman, Gerhard Wagner.   

Abstract

We introduce a eukaryotic cellular system, the Xenopus laevis oocyte, for in-cell NMR analyses of biomolecules at high resolution and delineate the experimental reference conditions for successful implementations of in vivo NMR measurements in this cell type. This approach enables quantitative NMR experiments at defined intracellular concentrations of exogenous proteins, which is exemplified by the description of in-cell NMR properties of the protein G B1 domain (GB1). Additional experiments in Xenopus egg extracts and artificially crowded in vitro solutions suggest that for this biologically inert protein domain, intracellular viscosity and macromolecular crowding dictate its in vivo behavior. These contributions appear particularly pronounced for protein regions with high degrees of internal mobility in the pure state. We also evaluate the experimental limitations of this method and discuss potential applications toward the in situ structural characterization of eukaryotic cellular activities.

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Year:  2006        PMID: 16873549      PMCID: PMC1523310          DOI: 10.1073/pnas.0604667103

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  23 in total

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Authors:  J M Wieruszeski; A Bohin; J P Bohin; G Lippens
Journal:  J Magn Reson       Date:  2001-07       Impact factor: 2.229

Review 2.  From words to literature in structural proteomics.

Authors:  Andrej Sali; Robert Glaeser; Thomas Earnest; Wolfgang Baumeister
Journal:  Nature       Date:  2003-03-13       Impact factor: 49.962

3.  The roboocyte: automated cDNA/mRNA injection and subsequent TEVC recording on Xenopus oocytes in 96-well microtiter plates.

Authors:  Katrin Schnizler; Mike Küster; Christoph Methfessel; Michael Fejtl
Journal:  Receptors Channels       Date:  2003

4.  Multidimensional NMR spectroscopy for protein characterization and assignment inside cells.

Authors:  Patrick N Reardon; Leonard D Spicer
Journal:  J Am Chem Soc       Date:  2005-08-10       Impact factor: 15.419

5.  Mapping structural interactions using in-cell NMR spectroscopy (STINT-NMR).

Authors:  David S Burz; Kaushik Dutta; David Cowburn; Alexander Shekhtman
Journal:  Nat Methods       Date:  2006-02       Impact factor: 28.547

Review 6.  Using Xenopus oocyte extracts to study signal transduction.

Authors:  Richard F Crane; Joan V Ruderman
Journal:  Methods Mol Biol       Date:  2006

7.  Macromolecular crowding in the Escherichia coli periplasm maintains alpha-synuclein disorder.

Authors:  Brian C McNulty; Gregory B Young; Gary J Pielak
Journal:  J Mol Biol       Date:  2005-12-01       Impact factor: 5.469

8.  The program XEASY for computer-supported NMR spectral analysis of biological macromolecules.

Authors:  C Bartels; T H Xia; M Billeter; P Güntert; K Wüthrich
Journal:  J Biomol NMR       Date:  1995-07       Impact factor: 2.835

9.  NMRPipe: a multidimensional spectral processing system based on UNIX pipes.

Authors:  F Delaglio; S Grzesiek; G W Vuister; G Zhu; J Pfeifer; A Bax
Journal:  J Biomol NMR       Date:  1995-11       Impact factor: 2.835

10.  Protein dynamics in living cells.

Authors:  Julie E Bryant; Juliette T J Lecomte; Andrew L Lee; Gregory B Young; Gary J Pielak
Journal:  Biochemistry       Date:  2005-07-05       Impact factor: 3.162

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  78 in total

1.  NMR protein structure determination in living E. coli cells using nonlinear sampling.

Authors:  Teppei Ikeya; Atsuko Sasaki; Daisuke Sakakibara; Yoshiki Shigemitsu; Junpei Hamatsu; Tomomi Hanashima; Masaki Mishima; Masatoshi Yoshimasu; Nobuhiro Hayashi; Tsutomu Mikawa; Daniel Nietlispach; Markus Wälchli; Brian O Smith; Masahiro Shirakawa; Peter Güntert; Yutaka Ito
Journal:  Nat Protoc       Date:  2010-05-13       Impact factor: 13.491

2.  Interaction of α-synuclein and a cell penetrating fusion peptide with higher eukaryotic cell membranes assessed by ¹⁹F NMR.

Authors:  Imola G Zigoneanu; Gary J Pielak
Journal:  Mol Pharm       Date:  2012-03-13       Impact factor: 4.939

3.  A novel and simple method of production and biophysical characterization of a mini-membrane protein, Ost4p: a subunit of yeast oligosaccharyl transferase.

Authors:  Amit Kumar; Priscilla Ward; Uma V Katre; Smita Mohanty
Journal:  Biopolymers       Date:  2012-02-03       Impact factor: 2.505

Review 4.  A Unique Tool for Cellular Structural Biology: In-cell NMR.

Authors:  Enrico Luchinat; Lucia Banci
Journal:  J Biol Chem       Date:  2015-12-16       Impact factor: 5.157

5.  Peeking into living eukaryotic cells with high-resolution NMR.

Authors:  Lisa M Charlton; Gary J Pielak
Journal:  Proc Natl Acad Sci U S A       Date:  2006-07-31       Impact factor: 11.205

6.  Ribosome Mediated Quinary Interactions Modulate In-Cell Protein Activities.

Authors:  Christopher M DeMott; Subhabrata Majumder; David S Burz; Sergey Reverdatto; Alexander Shekhtman
Journal:  Biochemistry       Date:  2017-08-03       Impact factor: 3.162

Review 7.  Perspectives on NMR in drug discovery: a technique comes of age.

Authors:  Maurizio Pellecchia; Ivano Bertini; David Cowburn; Claudio Dalvit; Ernest Giralt; Wolfgang Jahnke; Thomas L James; Steve W Homans; Horst Kessler; Claudio Luchinat; Bernd Meyer; Hartmut Oschkinat; Jeff Peng; Harald Schwalbe; Gregg Siegal
Journal:  Nat Rev Drug Discov       Date:  2008-09       Impact factor: 84.694

8.  Probing non-specific interactions of Ca²⁺-calmodulin in E. coli lysate.

Authors:  Michael P Latham; Lewis E Kay
Journal:  J Biomol NMR       Date:  2013-01-17       Impact factor: 2.835

Review 9.  In-Cell NMR Spectroscopy of Intrinsically Disordered Proteins.

Authors:  Nicholas Sciolino; David S Burz; Alexander Shekhtman
Journal:  Proteomics       Date:  2019-01-15       Impact factor: 3.984

10.  Characterization of proteins by in-cell NMR spectroscopy in cultured mammalian cells.

Authors:  Letizia Barbieri; Enrico Luchinat; Lucia Banci
Journal:  Nat Protoc       Date:  2016-05-19       Impact factor: 13.491

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