Research describes new techniques to study protein-DNA interactions

Jun 10, 2013

Work undertaken at the John Innes Centre describes new Surface Plasmon Resonance (SPR) protocols to identify and footprint protein-DNA interactions in a cost effective and semi-automated way.

This work, published in Nucleic Acids Research, illustrates the application of these methods by locating specific binding sites for a bacterial transcription factor and accurately defining the protein footprints on the DNA. These observations were then verified by determining the structure of a representative protein-DNA complex using X-ray crystallography.

These new methods will appeal to those investigating protein-nucleic acid interactions as an alternative to traditional methods, such as electrophoretic mobility shift assays and DNase I footprinting.

The SPR protocols are based on an indirect DNA capture method that has been termed ReDCaT (Re-usable DNA Capture Technique). ReDCaT is now being offered as a service by Inspiralis, a company founded in 1995 by John Innes Centre researchers.

Explore further: Nano-sized chip "sniffs out" explosives far better than trained dogs

More information: Stevenson, C. et al. (2013). Investigation of DNA sequence recognition by a streptomycete MarR family transcriptional regulator through surface plasmon resonance and X-ray crystallography, Nucleic Acids Research. nar.oxfordjournals.org/content… 6/07/nar.gkt523.full

add to favorites email to friend print save as pdf

Related Stories

Predicting protein binding sites on DNA

Oct 15, 2012

In silico prediction of protein folding has the potential to reveal the specificity of a given protein sequence for DNA. Such methods are particularly promising as they could open the road to the rational ...

Unspooling DNA from nucleosomal disks

May 23, 2013

The tight wrapping of genomic DNA around nucleosomes in the cell nucleus makes it unavailable for gene expression. A team of Ludwig-Maximilians-Universitaet (LMU) in Munich now describes a mechanism that allows chromosomal ...

Recommended for you

Nature inspires a greener way to make colorful plastics

3 hours ago

Long before humans figured out how to create colors, nature had already perfected the process—think stunning, bright butterfly wings of many different hues, for example. Now scientists are tapping into ...

New catalyst converts carbon dioxide to fuel

4 hours ago

Scientists from the University of Illinois at Chicago have synthesized a catalyst that improves their system for converting waste carbon dioxide into syngas, a precursor of gasoline and other energy-rich products, bringing ...

Bullet 'fingerprints' to help solve crimes

4 hours ago

Criminals don't just have to worry about their own fingerprints these days: because of a young forensic scientist at The University of Western Australia, they should also be very concerned about their bullets' ...

User comments : 0