Crystal structure of the C-terminal 2',5'-phosphodiesterase domain of group a rotavirus protein VP3

Proteins: Structure, Function and Bioinformatics

Volumn 83, Issue 5, 2015, Pages 997-1002

  Brandmann, Tobias ^a   Jinek, Martin ^a  

^a UNIVERSITY OF ZURICH   (Switzerland)

Author keywords

2 5A; 2H phosphoesterase; Immune evasion; Innate immunity; Oligoadenylate synthase; Phosphodiesterase; RNase L; Rotavirus

Indexed keywords

2'5' PHOSPHODIESTERASE; PHOSPHODIESTERASE; PROTEIN VP3; UNCLASSIFIED DRUG; VIRUS DNA; CAPSID PROTEIN; VP3 PROTEIN, ROTAVIRUS;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CRYSTAL STRUCTURE; DNA SEQUENCE; IMMUNE EVASION; LIGAND BINDING; NONHUMAN; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN DOMAIN; PROTEIN PURIFICATION; ROTAVIRUS A; STRUCTURAL HOMOLOGY; VIROGENESIS; CHEMICAL STRUCTURE; CHEMISTRY; ENZYME ACTIVE SITE; ENZYMOLOGY; HYDROGEN BOND; PROTEIN SECONDARY STRUCTURE; ROTAVIRUS; X RAY CRYSTALLOGRAPHY;

MAMMALIA; ROTAVIRUS; ROTAVIRUS A;

CAPSID PROTEINS; CATALYTIC DOMAIN; CRYSTALLOGRAPHY, X-RAY; HYDROGEN BONDING; MODELS, MOLECULAR; PHOSPHORIC DIESTER HYDROLASES; PROTEIN STRUCTURE, SECONDARY; ROTAVIRUS;

EID: 84927693698     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.24794     Document Type: Article

References (34)

1. Sen GC. Viruses and interferons. Annu Rev Microbiol 2001;55:255-281.
2. Stark GR, Kerr IM, Williams BR, Silverman RH, Schreiber RD. How cells respond to interferons. Annu Rev Biochem 1998;67:227-264.
3. Sadler AJ, Williams BR. Interferon-inducible antiviral effectors. Nat Rev Immunol 2008;8:559-568.
4. Player MR, Torrence PF. The 2-5A system: modulation of viral and cellular processes through acceleration of RNA degradation. Pharmacol Therap 1998;78:55-113.
5. Chebath J, Benech P, Revel M, Vigneron M. Constitutive expression of (2'-5') oligo a synthetase confers resistance to picornavirus infection. Nature 1987;330:587-588.
6. Zhou A, Hassel BA, Silverman RH. Expression cloning of 2-5A-dependent RNAase: a uniquely regulated mediator of interferon action. Cell 1993;72:753-765.
7. Hartmann R, Justesen J, Sarkar SN, Sen GC, Yee VC. Crystal structure of the 2'-specific and double-stranded RNA-activated interferon-induced antiviral protein 2'-5'-oligoadenylate synthetase. Mol Cell 2003;12:1173-1185.
8. Han Y, Whitney G, Donovan J, Korennykh A. Innate immune messenger 2-5A tethers human RNase L into active high-order complexes. Cell Rep 2012;2:902-913.
9. Huang H, Zeqiraj E, Dong B, Jha BK, Duffy NM, Orlicky S, Thevakumaran N, Talukdar M, Pillon MC, Ceccarelli DF, Wan LC, Juang YC, Mao DY, Gaughan C, Brinton MA, Perelygin AA, Kourinov I, Guarne A, Silverman RH, Sicheri F. Dimeric structure of pseudokinase RNase L bound to 2-5A reveals a basis for interferon-induced antiviral activity. Mol Cell 2014;53:221-234.
10. Silverman RH. Viral encounters with 2', 5'-oligoadenylate synthetase and RNase L during the interferon antiviral response. J Virol 2007;81:12720-12729.
11. Schwarz B, Routledge E, Siddell SG. Murine coronavirus nonstructural protein ns2 is not essential for virus replication in transformed cells. J Virol 1990;64:4784-4791.
12. Bredenbeek PJ, Noten AF, Horzinek MC, Spaan WJ. Identification and stability of a 30-kDa nonstructural protein encoded by mRNA 2 of mouse hepatitis virus in infected cells. Virology 1990;175:303-306.
13. Zoltick PW, Leibowitz JL, Oleszak EL, Weiss SR. Mouse hepatitis virus ORF 2a is expressed in the cytosol of infected mouse fibroblasts. Virology 1990;174:605-607.
14. Zhang R, Jha BK, Ogden KM, Dong B, Zhao L, Elliott R, Patton JT, Silverman RH, Weiss SR. Homologous 2', 5'-phosphodiesterases from disparate RNA viruses antagonize antiviral innate immunity. Proc Natl Acad Sci USA 2013;110:13114-13119.
15. Zhao L, Jha BK, Wu A, Elliott R, Ziebuhr J, Gorbalenya AE, Silverman RH, Weiss SR. Antagonism of the interferon-induced OAS-RNase L pathway by murine coronavirus ns2 protein is required for virus replication and liver pathology. Cell Host Microbe 2012;11:607-616.
16. Wong W, Scott JD. AKAP signalling complexes: focal points in space and time. Nat Rev Mol Cell Biol 2004;5:959-970.
17. Gusho E, Zhang R, Jha BK, Thornbrough JM, Dong B, Gaughan C, Elliott R, Weiss SR, Silverman RH. Murine akap7 has a 2', 5'-phosphodiesterase domain that can complement an inactive murine coronavirus ns2 gene. mBio 2014;5:e01312-01314.
18. Kabsch W. Xds. Acta Crystallogr Sect D Biol Crystallogr 2010;66:125-132.
19. Evans PR. An introduction to data reduction: space-group determination, scaling and intensity statistics. Acta Crystallogr Sect D Biol Crystallogr 2011;67:282-292.
20. Zwart PH, Afonine PV, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, McKee E, Moriarty NW, Read RJ, Sacchettini JC, Sauter NK, Storoni LC, Terwilliger TC, Adams PD. Automated structure solution with the PHENIX suite. Methods Mol Biol 2008;426:419-435.
21. Read RJ, McCoy AJ. Using SAD data in phaser. Acta Crystallogr Sect D Biol Crystallogr 2011;67:338-344.
22. Langer G, Cohen SX, Lamzin VS, Perrakis A. Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7. Nat Protoc 2008;3:1171-1179.
23. Emsley P, Cowtan K. Coot: model-building tools for molecular graphics. Acta Crystallogr Sect D Biol Crystallogr 2004;60:2126-2132.
24. Afonine PV, Grosse-Kunstleve RW, Echols N, Headd JJ, Moriarty NW, Mustyakimov M, Terwilliger TC, Urzhumtsev A, Zwart PH, Adams PD. Towards automated crystallographic structure refinement with phenix.refine. Acta Crystallogr Sect D Biol Crystallogr 2012;68:352-367.
25. Terwilliger TC, Adams PD, Moriarty NW, Cohn JD. Ligand identification using electron-density map correlations. Acta Crystallogr Sect D Biol Crystallogr 2007;63:101-107.
26. Mazumder R, Iyer LM, Vasudevan S, Aravind L. Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily. Nucleic Acids Res 2002;30:5229-5243.
27. Rao ST, Rossmann MG. Comparison of super-secondary structures in proteins. J Mol Biol 1973;76:241-256.
28. Holm L, Rosenstrom P. Dali server: conservation mapping in 3D. Nucleic Acids Res 2010;38:W545-W549.
29. Gold MG, Smith FD, Scott JD, Barford D. Akap18 contains a phosphoesterase domain that binds AMP. J Mol Biol 2008;375:1329-1343.
30. Hilcenko C, Simpson PJ, Finch AJ, Bowler FR, Churcher MJ, Jin L, Packman LC, Shlien A, Campbell P, Kirwan M, Dokal I, Warren AJ. Aberrant 3' oligoadenylation of spliceosomal u6 small nuclear RNA in poikiloderma with neutropenia. Blood 2013;121:1028-1038.
31. Rehse PH, Tahirov TH. Structure of a putative 2'-5' RNA ligase from Pyrococcus horikoshii. Acta Crystallogr Sect D Biol Crystallogr 2005;61:1207-1212.
32. Kato M, Shirouzu M, Terada T, Yamaguchi H, Murayama K, Sakai H, Kuramitsu S, Yokoyama S. Crystal structure of the 2'-5' RNA ligase from thermus thermophilus hb8. J Mol Biol 2003;329:903-911.
33. Hofmann A, Grella M, Botos I, Filipowicz W, Wlodawer A. Crystal structures of the semireduced and inhibitor-bound forms of cyclic nucleotide phosphodiesterase from arabidopsis thaliana. J Biol Chem 2002;277:1419-1425.
34. Katoh K, Misawa K, Kuma K, Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast fourier transform. Nucleic Acids Res 2002;30:3059-3066.