Characterization of DNA-binding activity of Zα domains from poxviruses and the importance of the β-wing regions in converting B-DNA to Z-DNA

Nucleic Acids Research

Volumn 35, Issue 22, 2007, Pages 7714-7720

  Van quyen, Dong ^a   Ha, Sung Chul ^a   Lowenhaupt, Ky ^b   Rich, Alexander ^b   Kim, Kyeong Kyu ^a   Kim, Yang Gyun ^c  

^a Sungkyunkwan University School of Medicine   (South Korea)

^b MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^c Sungkyunkwan University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; DNA B; DNA Z; PROTEIN E3L; UNCLASSIFIED DRUG; VIRUS DNA; VIRUS PROTEIN;

ARTICLE; BETA SHEET; CIRCULAR DICHROISM; CONTROLLED STUDY; GENE CONVERSION; GENE MUTATION; GENETIC STABILITY; MUTATIONAL ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; POXVIRUS; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN FUNCTION; SURFACE PLASMON RESONANCE; VACCINIA VIRUS;

AMINO ACID SEQUENCE; CHORDOPOXVIRINAE; DNA; DNA, Z-FORM; DNA-BINDING PROTEINS; LYSINE; MOLECULAR SEQUENCE DATA; MUTATION; PROTEIN STRUCTURE, TERTIARY; RNA-BINDING PROTEINS; SEQUENCE ALIGNMENT; SURFACE PLASMON RESONANCE; THREONINE; VIRAL PROTEINS;

MUS; VACCINIA VIRUS; VARIOLA VIRUS;

EID: 38049088409     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm748     Document Type: Article

References (24)

1. Whitley,R.J. (1996) Poxviridae: The viruses and their replication. In Fields,B., Knipe,D. and Howley,P. (eds), Fields Virology, Vol. 2, Chapter 83. 3rd edn. Lippincott-Raven, Philadelphia, pp. 2637-2671.
2. Yuwen,H., Cox,J.H., Yewdell,J.W., Bennink,J.R. and Moss,B. (1993) Nuclear localization of a double-stranded RNA-binding protein encoded by the vaccinia virus E3L gene. Virology, 195, 732-744.
3. Afonso,C.L., Tulman,E.R., Lu,Z., Zsak,L., Osorio,F.A., Balinsky,C., Kutish,G.F. and Rock,D.L. (2002) The genome of swinepox virus. J. Virol., 76, 783-790.
4. McFadden,G. (2005) Poxvirus tropism. Nat. Rev. Microbiol., 3 201-213.
5. Herbert,A., Alfken,J., Kim,Y.G., Mian,I.S., Nishikura,K. and Rich,A. (1997) A Z-DNA binding domain present in the human editing enzyme, double-stranded RNA adenosine deaminase. Proc. Natl Acad. Sci. USA 94, 8421-8426.
6. Berger,I., Winston,W., Manoharan,R., Schwartz,T., Alfken,J., Kim,Y.G., Lowenhaupt,K., Herbert,A. and Rich,A. (1998) Spectroscopic characterization of a DNA-binding domain, Z alpha, from the editing enzyme, dsRNA adenosine deaminase: Evidence for left-handed Z-DNA in the Z alpha-DNA complex. Biochemistry, 37, 13313-13321.
7. Kim,Y.G., Lowenhaupt,K., Maas,S., Herbert,A., Schwartz,T. and Rich,A. (2000) The zab domain of the human RNA editing enzyme ADAR1 recognizes Z-DNA when surrounded by B-DNA. J. Biol. Chem., 275, 26828-26833.
8. Kim,Y.G., Lowenhaupt,K., Oh,D.B., Kim,K.K. and Rich,A. (2004) Evidence that vaccinia virulence factor E3L binds to Z-DNA in vivo: Implications for development of a therapy for poxvirus infection. Proc. Natl Acad. Sci. USA, 101, 1514-1518.
9. Chang,H.W., Watson,J.C. and Jacobs,B.L. (1992) The E3L gene of vaccinia virus encodes an inhibitor of the interferon-induced, double-stranded RNA-dependent protein kinase. Proc. Natl Acad. Sci. USA, 89, 4825-4829.
10. Chang,H.W. and Jacobs,B.L. (1993) Identification of a conserved motif that is necessary for binding of the vaccinia virus E3L gene products to double-stranded RNA. Virology, 194, 537-547.
11. Romano,P.R., Zhang,F., Tan,S.L., Garcia-Barrio,M.T., Katze,M.G., Dever,T.E. and Hinnebusch,A.G. (1998) Inhibition of double-stranded RNA-dependent protein kinase PKR by vaccinia virus E3: Role of complex formation and the E3 N-terminal domain. Mol. Cell. Biol., 18 7304-7316.
12. Sharp,T.V., Moonan,F., Romashko,A., Joshi,B., Barber,G.N. and Jagus,R. (1998) The vaccinia virus E3L gene product interacts with both the regulatory and the substrate binding regions of PKR: Implications for PKR autoregulation. Virology, 250, 302-315.
13. Shors,T., Kibler,K.V., Perkins,K.B., Seidler-Wulff,R., Banaszak,M.P. and Jacobs,B.L. (1997) Complementation of vaccinia virus deleted of the E3L gene by mutants of E3L [In Process Citation]. Virology, 239, 269-276.
14. Schwartz,T., Rould,M.A., Lowenhaupt,K., Herbert,A. and Rich,A. (1999) Crystal structure of the Zalpha domain of the human editing enzyme ADAR1 bound to left-handed Z-DNA. Science, 284, 1841-1845.
15. Schwartz,T., Behlke,J., Lowenhaupt,K., Heinemann,U. and Rich,A. (2001) Structure of the DLM-1-Z-DNA complex reveals a conserved family of Z- DNA-binding proteins. Nat. Struct. Biol., 8, 761-765.
16. Ha,S.C., Lokanath,N.K., Van Quyen,D., Wu,C.A., Lowenhaupt,K., Rich,A., Kim,Y.G. and Kim,K.K. (2004) A poxvirus protein forms a complex with left-handed Z-DNA: Crystal structure of a Yatapoxvirus Zalpha bound to DNA. Proc. Natl Acad. Sci. USA, 101, 14367-14372.
17. Kahmann,J.D., Weeking,D.A., Putter,V., Lowenhaupt,K., Kim,Y.G., Schmieder,P., Oschkinat,H., Rich,A. and Schade,M. (2004) The solution structure of the N-terminal domain of E3L shows a tyrosine conformation that may explain its reduced affinity to Z-DNA in vitro. Proc. Natl Acad. Sci. USA, 101, 2712-2717.
18. Brandt,T.A. and Jacobs,B.L. (2001) Both carboxy- and amino-terminal domains of the vaccinia virus interferon resistance gene, E3L, are required for pathogenesis in a mouse model. J. Virol., 75, 850-856.
19. Kim,Y.G., Muralinath,M., Brandt,T., Pearcy,M., Hauns,K., Lowenhaupt,K., Jacobs,B.L. and Rich,A. (2003) A role for Z-DNA binding in vaccinia virus pathogenesis. Proc. Natl Acad. Sci. USA, 100, 6974-6979.
20. Kwon,J.A. and Rich,A. (2005) Biological function of the vaccinia virus Z-DNA-binding protein E3L: Gene transactivation and antiapoptotic activity in HeLa cells. Proc. Natl Acad. Sci. USA, 102, 12759-12764.
21. Schwartz,T., Lowenhaupt,K., Kim,Y.G., Li,L., Brown,B.A. II, Herbert,A. and Rich,A. (1999) Proteolytic dissection of Zab, the Z-DNA-binding domain of human ADAR1. J. Biol. Chem., 274, 2899-2906.
22. Kim,D.J., Oh,D.B., Lee,S.M., Choi,I.S. and Kim,Y.G. (2004) Fluorescence detection of protein/Z-DNA interactions. Bull. Korean Chem. Soc., 25, 1430-1432.
23. Ha,S.C., Van Quyen,D., Hwang,H.Y., Oh,D.B., Brown,B.A. II, Lee,S.M., Park,H.J., Ahn,J.H., Kim,K.K. et al. (2006) Biochemical characterization and preliminary X-ray crystallographic study of the domains of human ZBP1 bound to left-handed Z-DNA. Biochim. Biophys. Acta., 1764, 320-323.
24. Rothenburg,S., Deigendesch,N., Dittmar,K., Koch-Nolte,F., Haag,F., Lowenhaupt,K. and Rich,A. (2005) A PKR-like eukaryotic initiation factor 2alpha kinase from zebrafish contains Z-DNA binding domains instead of dsRNA binding domains. Proc. Natl Acad. Sci. USA, 102, 1602-1607.