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Synchrotron radiation circular dichroism spectroscopy of proteins: secondary structure, fold recognition and structural genomics

B.A Wallace, Robert W Janes
2001 Current Opinion in Chemical Biology  
We thank Anthony Willis of Oxford University for the quantitative amino acid analyses to determine protein concentrations.  ...  This work was supported by grants from the BBSRC, including a Structural Biology Centre grant to the CPMSD (Gareth Jones, PI), and a project grant and beamtime awards (to BAW).  ...  Recent developments in instrumentation and bioinformatics show that the technique of synchrotron radiation circular dichroism spectroscopy can provide novel information on protein secondary structures  ... 
doi:10.1016/s1367-5931(00)00243-x pmid:11578931 fatcat:dqj4rvw6s5da7kexaoylgng6jm

Circular Dichroism Techniques: Biomolecular and Nanostructural Analyses- A Review

Bijan Ranjbar, Pooria Gill
2009 Chemical Biology and Drug Design  
dichroism, high pressure liquid chromatography circular dichroism, stopped-flow circular dichroism, and synchrotron radiation circular dichroism.  ...  Also, we have described here the most important applications of circular dichroism spectroscopy in structural biochemistry and nanoscience.  ...  Yaghoub Fathollahi for editing of the manuscript.  ... 
doi:10.1111/j.1747-0285.2009.00847.x pmid:19566697 fatcat:5sxmq7rdrncujm5i7gto75ihaq

Synchrotron Radiation Circular Dichroism (SRCD) spectroscopy: New beamlines and new applications in biology

Andrew J. Miles, Søren Vrønning Hoffmann, Ye Tao, Robert W. Janes, B. A. Wallace
2007 Spectroscopy (Ottawa)  
Circular Dichroism (SRCD) spectroscopy to become a useful tool for structural and functional biology.  ...  New advances in instrumentation, demonstration of proof-of-principle studies, and development of new tools and methods for data analysis and interpretation have enabled the technique of Synchrotron Radiation  ...  Acknowledgements Supported by a project grant from the UK BBSRC to B.A.W., a BBSRC China Partnering Award to B.A.W. and R.W.J., and a grant (10635060) from the National Natural Science Foundation of China  ... 
doi:10.1155/2007/282713 fatcat:ct66q5jm4ralrdrzhs2n6kzbxe

Synergistic use of synchrotron radiation techniques for biological samples in solution: a case study on protein-ligand recognition by the peroxisomal import receptor Pex5p

W. A. Stanley, A. Sokolova, A. Brown, D. T. Clarke, M. Wilmanns, D. I. Svergun
2004 Journal of Synchrotron Radiation  
Circular dichroism spectropolarimetry and X-ray scattering data, obtained using synchrotron radiation, can yield information about the secondary and tertiary structure of proteins in solution.  ...  Implications of the combined use of synchrotronbased circular dichroism spectropolarimetry and X-ray scattering in structural biology and proteomics are discussed.  ...  Synchrotron radiation circular dichroism spectropolarimetry (SRCD) has emerged as a powerful technique for evaluating the secondary structure of proteins in solution (Wallace, 2000; Wallace & Janes, 2001  ... 
doi:10.1107/s090904950402504x pmid:15496737 fatcat:56ma7ku3evb3napalsv37nm4be

Protein characterisation by synchrotron radiation circular dichroism spectroscopy

B. A. Wallace
2009 Quarterly Reviews of Biophysics (print)  
Synchrotron radiation circular dichroism (SRCD) spectroscopy extends the utility of conventional CD spectroscopy (i.e. using laboratory-based instruments) because the high light flux from a synchrotron  ...  Circular dichroism (CD) spectroscopy is a well-established technique for the study of proteins.  ...  Introduction 319 1.1 Circular dichroism spectroscopy 319 1.2 Synchrotron radiation circular dichroism spectroscopy 319 1.3 The development of synchrotron radiation circular dichroism spectroscopy for the  ... 
doi:10.1017/s003358351000003x pmid:20450533 fatcat:3d5vjd7kxzfnjbvivsyawfyxp4

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

Jonathan G. Lees, Andrew J. Miles, Frank Wien, B. A. Wallace
2006 Computer applications in the biosciences : CABIOS  
circular dichroism (SRCD) spectra to more accurately predict secondary structure than has been possible with existing reference datasets.  ...  Motivation: Circular Dichroism (CD) spectroscopy is a longestablished technique for studying protein secondary structures in solution.  ...  INTRODUCTION Circular dichroism (CD) spectroscopy is a valuable method for determining the secondary structural content of proteins (Woody, 1996; Johnson, 1999; Kelly et al., 2005) .  ... 
doi:10.1093/bioinformatics/btl327 pmid:16787970 fatcat:tbo7x7762revvprk2c2a3il4ma

Combining sequence-based prediction methods and circular dichroism and infrared spectroscopic data to improve protein secondary structure determinations

Jonathan G Lees, Robert W Janes
2008 BMC Bioinformatics  
In addition, combining the extra information content available from synchrotron radiation circular dichroism data with sequence methods also shows improvements.  ...  Protein secondary structures can also be determined experimentally from circular dichroism, and infrared spectroscopic data using empirical analysis methods.  ...  Wallace and members of the Wallace Lab of the School of Crystallography, Birkbeck College, University of London for useful discussions.  ... 
doi:10.1186/1471-2105-9-24 pmid:18197968 pmcid:PMC2253515 fatcat:6syxyaxyhjfppmiph3mstcsvmq

Synchrotron-radiation vacuum-ultraviolet circular dichroism spectroscopy in structural biology: an overview

Kunihiko Gekko
2019 Biophysics and Physicobiology  
Circular dichroism spectroscopy is widely used for analyzing the structures of chiral molecules, including biomolecules.  ...  The VUVCD spectra of proteins markedly improves the accuracy of predicting the contents and number of segments of the secondary structures, and their amino acid sequences when combined with bioinformatics  ...  Most of the instruments use nitrogen purge and the technique is widely called synchrotron-radiation circular dichroism (SRCD) spectroscopy, which is equivalent to SR-VUVCD spectroscopy used in this review  ... 
doi:10.2142/biophysico.16.0_41 pmid:30923662 pmcid:PMC6435020 fatcat:47vril7z3bbhjlzjns6zyqd6j4

Tools and methods for circular dichroism spectroscopy of proteins: a tutorial review

A J Miles, Robert W Janes, B A Wallace
2021 Chemical Society Reviews  
Circular dichroism (CD) spectroscopy is a widely-used method in biochemistry, structural biology and pharmaceutical chemistry.  ...  More than 24 000 papers published in the past decade have included CD characterisations of proteins; many of those studies have also included other complementary chemical, biophysical, and computational  ...  Acknowledgements This work was supported by grants from the UK Biotechnology and Biological Sciences Research Council (BBSRC) Bioinformatics and Biological Resources Fund (most recently, BB/P024092 to  ... 
doi:10.1039/d0cs00558d pmid:34132259 pmcid:PMC8328188 fatcat:hcd4dc4svbfn7otoicvcyrzt6y

Synchrotron radiation circular dichroism spectroscopy of proteins and applications in structural and functional genomics

Andrew J. Miles, B. A. Wallace
2006 Chemical Society Reviews  
The development of synchrotron radiation circular dichroism (SRCD), using the intense light of a synchrotron beam, has greatly expanded the utility of the method, especially as a tool for both structural  ...  The technique of Synchrotron Radiation Circular Dichroism (SRCD) spectroscopy and its advantages over conventional circular dichroism spectroscopy are described in this tutorial review, as well as recent  ...  Acknowledgements Our SRCD studies have been supported by grants from the BBSRC to BAW. AJM was supported by a studentship from the MRC.  ... 
doi:10.1039/b316168b pmid:16365641 fatcat:manm3fwi55by3iwrud7tdhjhnq

Accurate secondary structure prediction and fold recognition for circular dichroism spectroscopy

András Micsonai, Frank Wien, Linda Kernya, Young-Ho Lee, Yuji Goto, Matthieu Réfrégiers, József Kardos
2015 Proceedings of the National Academy of Sciences of the United States of America  
Circular dichroism (CD) spectroscopy is a widely used technique for the study of protein structure.  ...  Previously, only the tertiary structure class (all-α, all-β, α + β, α/β, and denatured) could be predicted from the CD spectra by CLUSTER algorithm in CDPro package (12, 32) .  ... 
doi:10.1073/pnas.1500851112 pmid:26038575 pmcid:PMC4475991 fatcat:aclmea7b4fbublodylrjs2uerm

Characterisation of the selective binding of antibiotics vancomycin and teicoplanin by the VanS receptor regulating type A vancomycin resistance in the enterococci

C.S. Hughes, E. Longo, M.K. Phillips-Jones, R. Hussain
2017 Biochimica et Biophysica Acta - General Subjects  
In vitro approaches were used to screen the structural and activity effects of a range of potential ligands with purified VanSA protein.  ...  Furthermore, binding of the antibiotics induced quicker, longer-lived phosphorylation states for VanSA, proposing them as activators of type A vancomycin resistance in the enterococci.  ...  Following the production of pure and active protein, biophysical approaches including circular dichroism (CD), magnetic synchrotron radiation circular dichroism (MSRCD) and fluorescence spectroscopy in  ... 
doi:10.1016/j.bbagen.2017.05.011 pmid:28511809 pmcid:PMC5482315 fatcat:ewdrkc4zxbepbfmgjn6yxfvuuu

Circular dichroism spectroscopy of membrane proteins

A. J. Miles, B. A. Wallace
2016 Chemical Society Reviews  
Circular dichroism spectra of helical bundle (red), beta barrel (blue), and mixed helical/sheet/unordered (green) membrane proteins.  ...  Access to the ISA and Soleil Synchrotrons was aided by the European Community Research Infrastructure Action under the FP6 ''Structuring the European Research Area'' Programme; travel  ...  Our SRCD and CD studies have been supported over the years by grants from the U.K.  ... 
doi:10.1039/c5cs00084j pmid:27347568 fatcat:aegagmgaujefjnoioe7dltkyfu

Applications of Synchrotron-Based Spectroscopic Techniques in Studying Nucleic Acids and Nucleic-Acid-Based Nanomaterials [chapter]

Peiwen Wu, Yang Yu, Claire E. McGhee, Li H. Tan, Abhijit Mishra, Gerard Wong, Yi Lu
2018 Synchrotron Radiation in Materials Science  
Fingerprints of bonding motifs in DNA duplexes of adenine and thymine revealed from circular dichroism: synchrotron radiation experiments and TDDFT calculations.  ...  ., and Nielsen, S.B. (2012) Probing electronic coupling between adenine bases in RNA strands from synchrotron radiation circular dichroism experiments.  ...  and National Institute of Health (GM124316 and MH110975).  ... 
doi:10.1002/9783527697106.ch18 fatcat:ciwu37cusjf47dabzla26ljjlu

Calcium, Acylation, and Molecular Confinement Favor Folding ofBordetella pertussisAdenylate Cyclase CyaA Toxin into a Monomeric and Cytotoxic Form

Johanna C. Karst, V. Yvette Ntsogo Enguéné, Sara E. Cannella, Orso Subrini, Audrey Hessel, Sylvain Debard, Daniel Ladant, Alexandre Chenal
2014 Journal of Biological Chemistry  
Acknowledgements We acknowledge SOLEIL for provision of synchrotron radiation facilities (Proposal ID 20110586 and 20120444) and we thank Frank Wien for assistance in using Disco beamline.  ...  The project was supported by the Agence Nationale de la Recherche, programme Jeunes Chercheurs (grant ANR-09-JCJC-0012), the Institut Pasteur Projet Transversal de Recherche PTR#374, Jacob class of Pasteur-Paris  ...  Synchrotron Radiation Circular Dichroism spectroscopy Synchrotron Radiation Circular dichroism (SR-CD) spectra were recorded on DISCO beamline at the synchrotron facility SOLEIL, (Gif-sur-Yvette, France  ... 
doi:10.1074/jbc.m114.580852 pmid:25231985 pmcid:PMC4215248 fatcat:kq5y64tjt5fldg3csaasdlqedi
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