Literature DB >> 28825203

Going deep into protein secondary structure with synchrotron radiation circular dichroism spectroscopy.

Patricia S Kumagai1, Ana P U Araujo1, Jose L S Lopes2.   

Abstract

Circular dichroism (CD) spectroscopy is a fast, powerful, well-established, and widely used analytical technique in the biophysical and structural biology community to study protein secondary structure and to track changes in protein conformation in different environments. The use of the intense light of a synchrotron beam as the light source for collecting CD measurements has emerged as an enhanced method, known as synchrotron radiation circular dichroism (SRCD) spectroscopy, that has several advantages over the conventional CD method, including a significant spectral range extension for data collection, deeper access to the lower limit (cut-off) of conventional CD spectroscopy, an improved signal-to-noise ratio to increase accuracy in the measurements, and the possibility to collect measurements in highly absorbing solutions. In this review, we discuss different applications of the SRCD technique by researchers from Latin America. In this context, we specifically look at the use of this method for examining the secondary structure and conformational behavior of proteins belonging to the four main classes of the hierarchical protein domain classification CATH (Class, Architecture, Topology, Homology) database, focusing on the advantages and improvements associated with SRCD spectroscopy in terms of characterizing proteins composed of different structural elements.

Entities:  

Keywords:  Circular dichroism spectroscopy; Conformational changes; Protein conformation; Protein secondary structure; Synchrotron radiation circular dichroism spectroscopy

Year:  2017        PMID: 28825203      PMCID: PMC5662050          DOI: 10.1007/s12551-017-0314-2

Source DB:  PubMed          Journal:  Biophys Rev        ISSN: 1867-2450


  42 in total

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Authors:  J C Sutherland; A Emrick; L L France; D C Monteleone; J Trunk
Journal:  Biotechniques       Date:  1992-10       Impact factor: 1.993

Review 2.  Protein characterisation by synchrotron radiation circular dichroism spectroscopy.

Authors:  B A Wallace
Journal:  Q Rev Biophys       Date:  2009-11       Impact factor: 5.318

3.  A reference database for circular dichroism spectroscopy covering fold and secondary structure space.

Authors:  Jonathan G Lees; Andrew J Miles; Frank Wien; B A Wallace
Journal:  Bioinformatics       Date:  2006-06-20       Impact factor: 6.937

4.  Using circular dichroism spectra to estimate protein secondary structure.

Authors:  Norma J Greenfield
Journal:  Nat Protoc       Date:  2006       Impact factor: 13.491

5.  Folding factors and partners for the intrinsically disordered protein micro-exon gene 14 (MEG-14).

Authors:  Jose Luiz S Lopes; Debora Orcia; Ana Paula U Araujo; Ricardo DeMarco; B A Wallace
Journal:  Biophys J       Date:  2013-06-04       Impact factor: 4.033

Review 6.  The alpha-helix as an electric macro-dipole.

Authors:  A Wada
Journal:  Adv Biophys       Date:  1976

Review 7.  Assessing protein disorder and induced folding.

Authors:  Véronique Receveur-Bréchot; Jean-Marie Bourhis; Vladimir N Uversky; Bruno Canard; Sonia Longhi
Journal:  Proteins       Date:  2006-01-01

8.  Advantages of synchrotron radiation circular dichroism spectroscopy to study intrinsically disordered proteins.

Authors:  Patricia S Kumagai; Ricardo DeMarco; Jose L S Lopes
Journal:  Eur Biophys J       Date:  2017-03-03       Impact factor: 1.733

9.  High-throughput SRCD using multi-well plates and its applications.

Authors:  Rohanah Hussain; Tamás Jávorfi; Timothy R Rudd; Giuliano Siligardi
Journal:  Sci Rep       Date:  2016-12-22       Impact factor: 4.379

10.  Membrane interactions of S100A12 (Calgranulin C).

Authors:  Assuero F Garcia; José L S Lopes; Antonio J Costa-Filho; Bonnie A Wallace; Ana P U Araujo
Journal:  PLoS One       Date:  2013-12-18       Impact factor: 3.240

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  9 in total

1.  Structural diversity in the Mycobacteria DUF3349 superfamily.

Authors:  Garry W Buchko; Jan Abendroth; John I Robinson; Isabelle Q Phan; Peter J Myler; Thomas E Edwards
Journal:  Protein Sci       Date:  2019-11-21       Impact factor: 6.725

2.  Kunitz-Type Peptides from Sea Anemones Protect Neuronal Cells against Parkinson's Disease Inductors via Inhibition of ROS Production and ATP-Induced P2X7 Receptor Activation.

Authors:  Aleksandra Kvetkina; Evgeny Pislyagin; Ekaterina Menchinskaya; Ekaterina Yurchenko; Rimma Kalina; Sergei Kozlovskiy; Leonid Kaluzhskiy; Alexander Menshov; Natalia Kim; Steve Peigneur; Jan Tytgat; Alexis Ivanov; Naira Ayvazyan; Elena Leychenko; Dmitry Aminin
Journal:  Int J Mol Sci       Date:  2022-05-04       Impact factor: 6.208

3.  Effect of setting data collection parameters on the reliability of a circular dichroism spectrum.

Authors:  Victor K Sousa; Jéssica A F Pedro; Patricia S Kumagai; Jose L S Lopes
Journal:  Eur Biophys J       Date:  2021-02-04       Impact factor: 1.733

Review 4.  Protein nanoparticles in drug delivery: animal protein, plant proteins and protein cages, albumin nanoparticles.

Authors:  Ehsan Kianfar
Journal:  J Nanobiotechnology       Date:  2021-05-29       Impact factor: 10.435

5.  Sample Volume Reduction Using the Schwarzschild Objective for a Circular Dichroism Spectrophotometer and an Application to the Structural Analysis of Lysine-36 Trimethylated Histone H3 Protein.

Authors:  Yudai Izumi; Koichi Matsuo
Journal:  Molecules       Date:  2018-11-02       Impact factor: 4.411

6.  Gold Nanoparticles Functionalized with Angiogenin for Wound Care Application.

Authors:  Lorena Maria Cucci; Giuseppe Trapani; Örjan Hansson; Diego La Mendola; Cristina Satriano
Journal:  Nanomaterials (Basel)       Date:  2021-01-14       Impact factor: 5.076

7.  Conformational Change and Activity Enhancement of Rabbit Muscle Lactate Dehydrogenase Induced by Polyethyleneimine.

Authors:  Xiafan Xu; Chunlan Du; Zilong Ren; Min Zhang; Lin Ma
Journal:  ACS Omega       Date:  2021-04-14

8.  The Secondary Structure of a Major Wine Protein is Modified upon Interaction with Polyphenols.

Authors:  Mattia Di Gaspero; Paolo Ruzza; Rohanah Hussain; Claudia Honisch; Barbara Biondi; Giuliano Siligardi; Matteo Marangon; Andrea Curioni; Simone Vincenzi
Journal:  Molecules       Date:  2020-04-03       Impact factor: 4.411

9.  Production and immunogenicity of Fubc subunit protein redesigned from DENV envelope protein.

Authors:  Abhishek Singh Rathore; Animesh Sarker; Rinkoo Devi Gupta
Journal:  Appl Microbiol Biotechnol       Date:  2020-03-30       Impact factor: 4.813

  9 in total

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