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Real-time IR observation of enzymatic processes on DNA

11 May 2020 | News
by Ian Michael

DNA strand breaks can contribute to the development of cancer and the ageing process. Researchers from the Departments of Biology and Chemistry of the University of Konstanz have now been able to observe in real time the molecular processes that take place at DNA strand breaks by means of infrared spectroscopy. DNA damage in general and DNA strand breaks in particular occur every day in all cells of the human body. This is due to internal influences such as free radicals, which are produced during inflammatory processes and cellular respiration, and external ones, such as cosmic background radiation or X-rays in the course of medical diagnostic measures. DNA strand breaks can lead to cell death or to mutations and thus contribute in the long term to cancer development or the ageing process.

Cells possess molecular tools to repair such DNA strand breaks very efficiently. One of them is the enzyme poly(ADP-ribose) polymerase 1 (PARP1), which detects DNA strand breaks and thereby initiates downstream repair processes. By binding to a DNA strand break, PARP1 is (catalytically) activated and uses the substrate nicotinamide adenine dinucleotide (NAD+) to produce poly(ADP-ribose) (PAR), a chain-shaped biopolymer. This serves as a signal transmitter in the cell and coordinates the further DNA damage response. In the further course of the process, PARP1 detaches from the site of damage again, thus clearing the way for subsequent steps in DNA repair. This process is of medical importance, even more so as pharmacological inhibitors of PARP1 have recently been introduced into cancer therapy.

Scientists at the University of Konstanz (working groups of Professor Aswin Mangerich and Professor Alexander Bürkle, Department of Biology, and working group of Professor Karin Hauser, Department of Chemistry) have now been able to visualise in detail the biochemical processes which PARP1 fulfils at a DNA strand break. To this end, they used attenuated total reflection Fourier transform infrared spectroscopy (ATR-FTIR), which had also been successfully used in a previous study on the interactions of the tumour suppressor protein p53 with DNA and PAR.

“What is special about our new study is that we can now investigate the molecular processes that PARP1 undergoes at DNA strand breaks in real time. This enabled us to unveil dynamic changes in the protein structure and thus gain further insights into the underlying mechanisms,” said Dr Annika Krüger, who worked on the project as part of her doctoral thesis. She is now pursuing research at the Karolinska Institute in Stockholm, Sweden.

As a matter of principle, this spectroscopic method can be used to investigate also other enzymatic processes that take place at the DNA, in detail and with molecular resolution. In the long term, this may contribute to better understanding of the mechanisms of cancer development and ageing, as well as of the mode of action of anticancer drugs. The study was published in Nature Communications.

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