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: Haunting tales in ship-wrecked silver

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

The origins of handedness in life

16 hours ago

Handedness is a complicated business. To simply say life is left-handed doesn't even begin to capture the blooming hierarchy of binary refinements it continues to evolve. Over the years there have been numerous ...

Have our bodies held the key to new antibiotics all along?

19 hours ago

As the threat of antibiotic resistance grows, scientists are turning to the human body and the trillion or so bacteria that have colonized us—collectively called our microbiota—for new clues to fighting microbial infections. ...

Characterizing an important reactive intermediate

Oct 01, 2014

An international group of researchers led by Dr. Warren E. Piers (University of Calgary) and Dr. Heikki M. Tuononen (University of Jyväskylä) has been able to isolate and characterize an important chemical ...

Surfaces that communicate in bio-chemical Braille

Oct 01, 2014

A Braille-like method that enables medical implants to communicate with a patient's cells could help reduce biomedical and prosthetic device failure rates, according to University of Sydney researchers.

User comments : 0