3eyi › Citations

The crystal structure of the second Z-DNA binding domain of human DAI (ZBP1) in complex with Z-DNA reveals an unusual binding mode to Z-DNA.

Ha SC, Kim D, Hwang HY, Rich A, Kim YG, Kim KK
Proc Natl Acad Sci U S A 105 20671-6 (2008)
Cited: 68 times
EuropePMC logo PMID: 19095800

Abstract

Mammalian DAI (DNA-dependent activator of IFN-regulatory factors), an activator of the innate immune response, senses cytosolic DNA by using 2 N-terminal Z-DNA binding domains (ZBDs) and a third putative DNA binding domain located next to the second ZBD. Compared with other previously known ZBDs, the second ZBD of human DAI (hZbeta(DAI)) shows significant variation in the sequence of the residues that are essential for DNA binding. In this article, the crystal structure of the hZbeta(DAI)/Z-DNA complex reveals that hZbeta(DAI) has a similar fold to that of other ZBDs, but adopts an unusual binding mode for recognition of Z-DNA. A residue in the first beta-strand rather than residues in the beta-loop contributes to DNA binding, and part of the (alpha3) recognition helix adopts a 3(10) helix conformation. The role of each residue that makes contact with DNA was confirmed by mutational analysis. The 2 ZBDs of DAI can together bind to DNA and both are necessary for full B-to-Z conversion. It is possible that binding 2 DAIs to 1 dsDNA brings about dimerization of DAI that might facilitate DNA-mediated innate immune activation.

Reviews - 3eyi mentioned but not cited (2)

  1. Molecular and Structural Basis of DNA Sensors in Antiviral Innate Immunity. Zahid A, Ismail H, Li B, Jin T. Front Immunol 11 613039 (2020)
  2. Host-pathogen protein-nucleic acid interactions: A comprehensive review. Jain A, Mittal S, Tripathi LP, Nussinov R, Ahmad S. Comput Struct Biotechnol J 20 4415-4436 (2022)

Articles - 3eyi mentioned but not cited (9)



Reviews citing this publication (21)

  1. ZBP1: Innate Sensor Regulating Cell Death and Inflammation. Kuriakose T, Kanneganti TD. Trends Immunol 39 123-134 (2018)
  2. Z-DNA and Z-RNA in human disease. Herbert A. Commun Biol 2 7 (2019)
  3. From keys to bulldozers: expanding roles for winged helix domains in nucleic-acid-binding proteins. Harami GM, Gyimesi M, Kovács M. Trends Biochem Sci 38 364-371 (2013)
  4. Zalpha-domains: at the intersection between RNA editing and innate immunity. Athanasiadis A. Semin Cell Dev Biol 23 275-280 (2012)
  5. RIPK3-driven cell death during virus infections. Upton JW, Shubina M, Balachandran S. Immunol Rev 277 90-101 (2017)
  6. Innate Immune Sensing of Influenza A Virus. Malik G, Zhou Y. Viruses 12 E755 (2020)
  7. Z-DNA in the genome: from structure to disease. Ravichandran S, Subramani VK, Kim KK. Biophys Rev 11 383-387 (2019)
  8. ALU non-B-DNA conformations, flipons, binary codes and evolution. Herbert A. R Soc Open Sci 7 200222 (2020)
  9. Viral Z-RNA triggers ZBP1-dependent cell death. Balachandran S, Mocarski ES. Curr Opin Virol 51 134-140 (2021)
  10. Dynamic alternative DNA structures in biology and disease. Wang G, Vasquez KM. Nat Rev Genet 24 211-234 (2023)
  11. ADAR1 and ZBP1 in innate immunity, cell death, and disease. Karki R, Kanneganti TD. Trends Immunol 44 201-216 (2023)
  12. Emerging Role of ZBP1 in Z-RNA Sensing, Influenza Virus-Induced Cell Death, and Pulmonary Inflammation. Basavaraju S, Mishra S, Jindal R, Kesavardhana S. mBio 13 e0040122 (2022)
  13. Thermodynamic Model for B-Z Transition of DNA Induced by Z-DNA Binding Proteins. Lee AR, Kim NH, Seo YJ, Choi SR, Lee JH. Molecules 23 E2748 (2018)
  14. C8-Guanine modifications: effect on Z-DNA formation and its role in cancer. Vongsutilers V, Gannett PM. Org Biomol Chem 16 2198-2209 (2018)
  15. Z-RNA biology: a central role in the innate immune response? Nichols PJ, Krall JB, Henen MA, Vögeli B, Vicens Q. RNA 29 273-281 (2023)
  16. ZBP1: A Powerful Innate Immune Sensor and Double-Edged Sword in Host Immunity. Hao Y, Yang B, Yang J, Shi X, Yang X, Zhang D, Zhao D, Yan W, Chen L, Zheng H, Zhang K, Liu X. Int J Mol Sci 23 10224 (2022)
  17. Z-nucleic acids: Uncovering the functions from past to present. Tang Q. Eur J Immunol 52 1700-1711 (2022)
  18. Mechanisms of TNF-independent RIPK3-mediated cell death. Tummers B, Green DR. Biochem J 479 2049-2062 (2022)
  19. Structure and function of African swine fever virus proteins: Current understanding. Yang S, Miao C, Liu W, Zhang G, Shao J, Chang H. Front Microbiol 14 1043129 (2023)
  20. Activation of cytosolic RNA sensors by endogenous ligands: roles in disease pathogenesis. Straub S, Sampaio NG. Front Immunol 14 1092790 (2023)
  21. Zα domain proteins mediate the immune response. Zhong Y, Zhong X, Qiao L, Wu H, Liu C, Zhang T. Front Immunol 14 1241694 (2023)

Articles citing this publication (36)



Quick links