Solution structure of the Z-DNA binding domain of PKR-like protein kinase from Carassius auratus and quantitative analyses of the intermediate complex during B-Z transition

Nucleic Acids Research
Ae-Ree LeeJoon-Hwa Lee

Abstract

Z-DNA binding proteins (ZBPs) play important roles in RNA editing, innate immune response and viral infection. Structural and biophysical studies show that ZBPs initially form an intermediate complex with B-DNA for B-Z conversion. However, a comprehensive understanding of the mechanism of Z-DNA binding and B-Z transition is still lacking, due to the absence of structural information on the intermediate complex. Here, we report the solution structure of the Zα domain of the ZBP-containing protein kinase from Carassius auratus (caZαPKZ). We quantitatively determined the binding affinity of caZαPKZ for both B-DNA and Z-DNA and characterized its B-Z transition activity, which is modulated by varying the salt concentration. Our results suggest that the intermediate complex formed by caZαPKZ and B-DNA can be used as molecular ruler, to measure the degree to which DNA transitions to the Z isoform.

References

Nov 1, 1995·Journal of Biomolecular NMR·F DelaglioA Bax
Jan 1, 1995·Methods in Enzymology·M Guéron, J L Leroy
May 17, 1996·The Journal of Biological Chemistry·A Herbert, A Rich
Dec 1, 1996·Journal of Biomolecular NMR·R A LaskowskiJ M Thornton
Aug 5, 1997·Proceedings of the National Academy of Sciences of the United States of America·A HerbertA Rich
Oct 3, 1998·Acta Crystallographica. Section D, Biological Crystallography·A T BrüngerG L Warren
Oct 27, 1999·Proceedings of the National Academy of Sciences of the United States of America·M SchadeH Oschkinat
Mar 11, 2000·Genetica·A Herbert, A Rich
Nov 15, 2001·Journal of the American Chemical Society·C Park, R T Raines
Jun 5, 2003·Proceedings of the National Academy of Sciences of the United States of America·Yang-Gyun KimAlexander Rich
Jul 3, 2003·Nature Reviews. Genetics·Alexander Rich, Shuguang Zhang
Sep 28, 2004·Proceedings of the National Academy of Sciences of the United States of America·Sung Chul HaKyeong Kyu Kim
Jan 22, 2005·Proceedings of the National Academy of Sciences of the United States of America·Stefan RothenburgAlexander Rich
Apr 11, 2006·Nature Structural & Molecular Biology·Alexei V KorennykhCarl C Correll
Nov 17, 2007·Nature Protocols·Axel T Brunger
Jul 30, 2009·Journal of the American Chemical Society·Young-Min KangJoon-Hwa Lee
Dec 17, 2009·Cell·Alexandra K GardinoDorothee Kern
Jan 11, 2014·Journal of Molecular Biology·Janice VillaliDorothee Kern

❮ Previous
Next ❯

Citations

Mar 28, 2018·Nucleic Acids Research·Sook Ho KimSeok-Cheol Hong
Oct 12, 2018·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Thananjeyan BalasubramaniyamYan Xu
Oct 26, 2018·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Ae-Ree LeeJoon-Hwa Lee
Apr 16, 2020·International Journal of Molecular Sciences·Kwang-Im OhJoon-Hwa Lee

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.