Literature DB >> 24365913

Synchrotron X-ray footprinting on tour.

Jen Bohon1, Rhijuta D'Mello1, Corie Ralston2, Sayan Gupta2, Mark R Chance1.   

Abstract

Synchrotron footprinting is a valuable technique in structural biology for understanding macromolecular solution-state structure and dynamics of proteins and nucleic acids. Although an extremely powerful tool, there is currently only a single facility in the USA, the X28C beamline at the National Synchrotron Light Source (NSLS), dedicated to providing infrastructure, technology development and support for these studies. The high flux density of the focused white beam and variety of specialized exposure environments available at X28C enables footprinting of highly complex biological systems; however, it is likely that a significant fraction of interesting experiments could be performed at unspecialized facilities. In an effort to investigate the viability of a beamline-flexible footprinting program, a standard sample was taken on tour around the nation to be exposed at several US synchrotrons. This work describes how a relatively simple and transportable apparatus can allow beamlines at the NSLS, CHESS, APS and ALS to be used for synchrotron footprinting in a general user mode that can provide useful results.

Entities:  

Keywords:  X-rays; beamlines; footprinting; radiolysis; structural biology

Mesh:

Substances:

Year:  2013        PMID: 24365913      PMCID: PMC3874017          DOI: 10.1107/S1600577513024715

Source DB:  PubMed          Journal:  J Synchrotron Radiat        ISSN: 0909-0495            Impact factor:   2.616


  36 in total

1.  Time-resolved synchrotron X-ray footprinting and its application to RNA folding.

Authors:  C Y Ralston; B Sclavi; M Sullivan; M L Deras; S A Woodson; M R Chance; M Brenowitz
Journal:  Methods Enzymol       Date:  2000       Impact factor: 1.600

2.  Concerted binding and bending of DNA by Escherichia coli integration host factor.

Authors:  Gauri M Dhavan; Donald M Crothers; Mark R Chance; Michael Brenowitz
Journal:  J Mol Biol       Date:  2002-02-01       Impact factor: 5.469

Review 3.  Probing the structural dynamics of nucleic acids by quantitative time-resolved and equilibrium hydroxyl radical "footprinting".

Authors:  Michael Brenowitz; Mark R Chance; Gauri Dhavan; Keiji Takamoto
Journal:  Curr Opin Struct Biol       Date:  2002-10       Impact factor: 6.809

4.  Structural analysis of gelsolin using synchrotron protein footprinting.

Authors:  Janna G Kiselar; Paul A Janmey; Steven C Almo; Mark R Chance
Journal:  Mol Cell Proteomics       Date:  2003-09-08       Impact factor: 5.911

Review 5.  Synchrotron radiolysis and mass spectrometry: a new approach to research on the actin cytoskeleton.

Authors:  Jing-Qu Guan; Steven C Almo; Mark R Chance
Journal:  Acc Chem Res       Date:  2004-04       Impact factor: 22.384

6.  Hydroxyl radical probe of protein surfaces using synchrotron X-ray radiolysis and mass spectrometry.

Authors:  J G Kiselar; S D Maleknia; M Sullivan; K M Downard; M R Chance
Journal:  Int J Radiat Biol       Date:  2002-02       Impact factor: 2.694

7.  Multiple monovalent ion-dependent pathways for the folding of the L-21 Tetrahymena thermophila ribozyme.

Authors:  Takeshi Uchida; Keiji Takamoto; Qin He; Mark R Chance; Michael Brenowitz
Journal:  J Mol Biol       Date:  2003-04-25       Impact factor: 5.469

8.  Structure and dynamics of protein waters revealed by radiolysis and mass spectrometry.

Authors:  Sayan Gupta; Rhijuta D'Mello; Mark R Chance
Journal:  Proc Natl Acad Sci U S A       Date:  2012-08-27       Impact factor: 11.205

9.  Monovalent ion-mediated folding of the Tetrahymena thermophila ribozyme.

Authors:  Inna Shcherbakova; Sayan Gupta; Mark R Chance; Michael Brenowitz
Journal:  J Mol Biol       Date:  2004-10-01       Impact factor: 5.469

10.  Visualizing the Ca2+-dependent activation of gelsolin by using synchrotron footprinting.

Authors:  Janna G Kiselar; Paul A Janmey; Steven C Almo; Mark R Chance
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-24       Impact factor: 11.205

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  8 in total

1.  Development of a microsecond X-ray protein footprinting facility at the Advanced Light Source.

Authors:  Sayan Gupta; Richard Celestre; Christopher J Petzold; Mark R Chance; Corie Ralston
Journal:  J Synchrotron Radiat       Date:  2014-05-16       Impact factor: 2.616

2.  Probing the structure of ribosome assembly intermediates in vivo using DMS and hydroxyl radical footprinting.

Authors:  Ryan M Hulscher; Jen Bohon; Mollie C Rappé; Sayan Gupta; Rhijuta D'Mello; Michael Sullivan; Corie Y Ralston; Mark R Chance; Sarah A Woodson
Journal:  Methods       Date:  2016-03-22       Impact factor: 3.608

3.  Time-Resolved Hydroxyl Radical Footprinting of RNA with X-Rays.

Authors:  Yumeng Hao; Jen Bohon; Ryan Hulscher; Mollie C Rappé; Sayan Gupta; Tadepalli Adilakshmi; Sarah A Woodson
Journal:  Curr Protoc Nucleic Acid Chem       Date:  2018-06-07

4.  Development of Container Free Sample Exposure for Synchrotron X-ray Footprinting.

Authors:  Sayan Gupta; Yan Chen; Christopher J Petzold; Daniel P DePonte; Corie Y Ralston
Journal:  Anal Chem       Date:  2019-12-16       Impact factor: 6.986

Review 5.  Protein Footprinting: Auxiliary Engine to Power the Structural Biology Revolution.

Authors:  Mark R Chance; Erik R Farquhar; Sichun Yang; David T Lodowski; Janna Kiselar
Journal:  J Mol Biol       Date:  2020-02-21       Impact factor: 5.469

6.  The XFP (17-BM) beamline for X-ray footprinting at NSLS-II.

Authors:  Awuri Asuru; Erik R Farquhar; Michael Sullivan; Donald Abel; John Toomey; Mark R Chance; Jen Bohon
Journal:  J Synchrotron Radiat       Date:  2019-06-04       Impact factor: 2.616

7.  Allosteric Priming of E. coli CheY by the Flagellar Motor Protein FliM.

Authors:  Paige Wheatley; Sayan Gupta; Alessandro Pandini; Yan Chen; Christopher J Petzold; Corie Y Ralston; David F Blair; Shahid Khan
Journal:  Biophys J       Date:  2020-08-15       Impact factor: 3.699

8.  Synchrotron X-ray footprinting as a method to visualize water in proteins.

Authors:  Sayan Gupta; Jun Feng; Leanne Jade G Chan; Christopher J Petzold; Corie Y Ralston
Journal:  J Synchrotron Radiat       Date:  2016-07-27       Impact factor: 2.616

  8 in total

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