Literature DB >> 28117766

Combining Wet and Dry Lab Techniques to Guide the Crystallization of Large Coiled-coil Containing Proteins.

Jenna K Zalewski1, Simone Heber2, Joshua H Mo1, Keith O'Conor1, Jeffrey D Hildebrand1, Andrew P VanDemark3.   

Abstract

Obtaining crystals for structure determination can be a difficult and time consuming proposition for any protein. Coiled-coil proteins and domains are found throughout nature, however, because of their physical properties and tendency to aggregate, they are traditionally viewed as being especially difficult to crystallize. Here, we utilize a variety of quick and simple techniques designed to identify a series of possible domain boundaries for a given coiled-coil protein, and then quickly characterize the behavior of these proteins in solution. With the addition of a strongly fluorescent tag (mRuby2), protein characterization is simple and straightforward. The target protein can be readily visualized under normal lighting and can be quantified with the use of an appropriate imager. The goal is to quickly identify candidates that can be removed from the crystallization pipeline because they are unlikely to succeed, affording more time for the best candidates and fewer funds expended on proteins that do not produce crystals. This process can be iterated to incorporate information gained from initial screening efforts, can be adapted for high-throughput expression and purification procedures, and is augmented by robotic screening for crystallization.

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Year:  2017        PMID: 28117766      PMCID: PMC5409187          DOI: 10.3791/54886

Source DB:  PubMed          Journal:  J Vis Exp        ISSN: 1940-087X            Impact factor:   1.355


  34 in total

1.  Structural insights into the interaction of ROCKI with the switch regions of RhoA.

Authors:  Radovan Dvorsky; Lars Blumenstein; Ingrid R Vetter; Mohammad Reza Ahmadian
Journal:  J Biol Chem       Date:  2003-12-02       Impact factor: 5.157

2.  Generalized Crick equations for modeling noncanonical coiled coils.

Authors:  Gerald Offer; Matthew R Hicks; Derek N Woolfson
Journal:  J Struct Biol       Date:  2002 Jan-Feb       Impact factor: 2.867

3.  Rapid protein domain assignment from amino acid sequence using predicted secondary structure.

Authors:  Russell L Marsden; Liam J McGuffin; David T Jones
Journal:  Protein Sci       Date:  2002-12       Impact factor: 6.725

Review 4.  The structure of alpha-helical coiled coils.

Authors:  Andrei N Lupas; Markus Gruber
Journal:  Adv Protein Chem       Date:  2005

5.  Theoretical analysis of the effects of reversible dimerization in size exclusion chromatography.

Authors:  Chi-Ming Yu; Sungyong Mun; Nien-Hwa Linda Wang
Journal:  J Chromatogr A       Date:  2006-08-02       Impact factor: 4.759

6.  pGenTHREADER and pDomTHREADER: new methods for improved protein fold recognition and superfamily discrimination.

Authors:  Anna Lobley; Michael I Sadowski; David T Jones
Journal:  Bioinformatics       Date:  2009-05-07       Impact factor: 6.937

Review 7.  A historical perspective on protein crystallization from 1840 to the present day.

Authors:  Richard Giegé
Journal:  FEBS J       Date:  2013-11-25       Impact factor: 5.542

8.  Molecular weight estimation of polypeptide chains by electrophoresis in SDS-polyacrylamide gels.

Authors:  A L Shapiro; E Viñuela; J V Maizel
Journal:  Biochem Biophys Res Commun       Date:  1967-09-07       Impact factor: 3.575

9.  Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega.

Authors:  Fabian Sievers; Andreas Wilm; David Dineen; Toby J Gibson; Kevin Karplus; Weizhong Li; Rodrigo Lopez; Hamish McWilliam; Michael Remmert; Johannes Söding; Julie D Thompson; Desmond G Higgins
Journal:  Mol Syst Biol       Date:  2011-10-11       Impact factor: 11.429

10.  The Phyre2 web portal for protein modeling, prediction and analysis.

Authors:  Lawrence A Kelley; Stefans Mezulis; Christopher M Yates; Mark N Wass; Michael J E Sternberg
Journal:  Nat Protoc       Date:  2015-05-07       Impact factor: 13.491

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