Crystal structure of RIG-I C-terminal domain bound to blunt-ended double-strand RNA without 5′ triphosphate

Nucleic Acids Research

Volumn 39, Issue 4, 2011, Pages 1565-1575

  Lu, Cheng ^a   Ranjith Kumar, C T ^b   Hao, Lujiang ^a,c   Kao, C Cheng ^b   Li, Pingwei ^a  

^a TEXAS A AND M UNIVERSITY   (United States)

^b INDIANA UNIVERSITY   (United States)

^c QILU UNIVERSITY OF TECHNOLOGY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

DOUBLE STRANDED RNA; RETINOIC ACID INDUCIBLE PROTEIN I;

AMINO ACID SUBSTITUTION; ARTICLE; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; CRYSTAL STRUCTURE; MUTATION; PRIORITY JOURNAL; PROTEIN RNA BINDING; SIGNAL TRANSDUCTION;

BINDING SITES; CRYSTALLOGRAPHY; DEAD-BOX RNA HELICASES; HEK293 CELLS; HUMANS; MODELS, MOLECULAR; MUTATION; PHOSPHATES; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; RNA, DOUBLE-STRANDED; RNA-BINDING PROTEINS; SIGNAL TRANSDUCTION;

EID: 79952325540     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkq974     Document Type: Article

References (38)

1. Takeuchi, O. and Akira, S. (2010) Pattern recognition receptors and inflammation. Cell, 140, 805-820.
2. Akira, S., Uematsu, S. and Takeuchi, O. (2006) Pathogen recognition and innate immunity. Cell, 124, 783-801. (Pubitemid 43261452)
3. Yoneyama, M. and Fujita, T. (2009) RNA recognition and signal transduction by RIG-I-like receptors. Immunol. Rev., 227, 54-65.
4. Pichlmair, A. and Reis e Sousa, C. (2007) Innate recognition of viruses. Immunity, 27, 370-383. (Pubitemid 47418682)
5. Yoneyama, M., Kikuchi, M., Natsukawa, T., Shinobu, N., Imaizumi, T., Miyagishi, M., Taira, K., Akira, S. and Fujita, T. (2004) The RNA helicase RIG-I has an essential function in double-stranded RNA-induced innate antiviral responses. Nat. Immunol., 5, 730-737. (Pubitemid 39023305)
6. Yoneyama, M., Kikuchi, M., Matsumoto, K., Imaizumi, T., Miyagishi, M., Taira, K., Foy, E., Loo, Y.M., Gale, M. Jr., Akira, S. et al. (2005) Shared and unique functions of the DExD/H-box helicases RIG-I, MDA5, and LGP2 in antiviral innate immunity. J. Immunol., 175, 2851-2858. (Pubitemid 41170502)
7. Yoneyama, M. and Fujita, T. (2007) Function of RIG-I-like receptors in antiviral innate immunity. J. Biol. Chem., 282, 15315-15318. (Pubitemid 47093255)
8. Rothenfusser, S., Goutagny, N., DiPerna, G., Gong, M., Monks, B.G., Schoenemeyer, A., Yamamoto, M., Akira, S. and Fitzgerald, K.A. (2005) The RNA helicase Lgp2 inhibits TLR-independent sensing of viral replication by retinoic acid-inducible gene-I. J. Immunol., 175, 5260-5268. (Pubitemid 41456411)
9. Satoh, T., Kato, H., Kumagai, Y., Yoneyama, M., Sato, S., Matsushita, K., Tsujimura, T., Fujita, T., Akira, S. and Takeuchi, O. (2010) LGP2 is a positive regulator of RIG-I- and MDA5-mediated antiviral responses. Proc. Natl Acad. Sci. USA, 107, 1512-1517.
10. Venkataraman, T., Valdes, M., Elsby, R., Kakuta, S., Caceres, G., Saijo, S., Iwakura, Y. and Barber, G.N. (2007) Loss of DExD/H box RNA helicase LGP2 manifests disparate antiviral responses. J. Immunol., 178, 6444-6455. (Pubitemid 46717428)
11. Li, X., Ranjith-Kumar, C.T., Brooks, M.T., Bharmaiah, S., Herr, A.B., Kao, C. and Li, P. (2009) The RIG-I like receptor LGP2 recognizes the termini of double-stranded RNA. J. Biol. Chem., 284, 13881-13891.
12. Kato, H., Takeuchi, O., Sato, S., Yoneyama, M., Yamamoto, M., Matsui, K., Uematsu, S., Jung, A., Kawai, T., Ishii, K.J. et al. (2006) Differential roles of MDA5 and RIG-I helicases in the recognition of RNA viruses. Nature, 441, 101-105.
13. Takeuchi, O. and Akira, S. (2009) Innate immunity to virus infection. Immunol. Rev., 227, 75-86.
14. McCartney, S.A. and Colonna, M. (2009) Viral sensors: diversity in pathogen recognition. Immunol. Rev., 227, 87-94.
15. Gitlin, L., Barchet, W., Gilfillan, S., Cella, M., Beutler, B., Flavell, R.A., Diamond, M.S. and Colonna, M. (2006) Essential role of mda-5 in type I IFN responses to polyriboinosinic:polyribocytidylic acid and encephalomyocarditis picornavirus. Proc. Natl Acad. Sci. USA, 103, 8459-8464. (Pubitemid 43838477)
16. 0-Triphosphate RNA is the ligand for RIG-I. Science, 314, 994-997.
17. 0-phosphates. Science, 314, 997-1001. (Pubitemid 44749946)
18. 0 triphosphate by RIG-I helicase requires short blunt double-stranded RNA as contained in panhandle of negative-strand virus. Immunity, 31, 25-34.
19. 0-triphosphate RNA requires base-paired structures to activate antiviral signaling via RIG-I. Proc. Natl Acad. Sci. USA, 106, 12067-12072.
20. Schlee, M. and Hartmann, G. (2010) The chase for the RIG-I ligand-recent advances. Mol. Ther., 18, 1254-1262.
21. Rehwinkel, J., Tan, C.P., Goubau, D., Schulz, O., Pichlmair, A., Bier, K., Robb, N., Vreede, F., Barclay, W., Fodor, E. et al. (2010) RIG-I detects viral genomic RNA during negative-strand RNA virus infection. Cell, 140, 397-408.
22. Fujita, T. (2009) A nonself RNA pattern: tri-p to panhandle. Immunity, 31, 4-5.
23. Marques, J.T., Devosse, T., Wang, D., Zamanian-Daryoush, M., Serbinowski, P., Hartmann, R., Fujita, T., Behlke, M.A. and Williams, B.R. (2006) A structural basis for discriminating between self and nonself double-stranded RNAs in mammalian cells. Nat. Biotechnol., 24, 559-565.
24. Kato, H., Takeuchi, O., Mikamo-Satoh, E., Hirai, R., Kawai, T., Matsushita, K., Hiiragi, A., Dermody, T.S., Fujita, T. and Akira, S. (2008) Length-dependent recognition of double-stranded ribonucleic acids by retinoic acid-inducible gene-I and melanoma differentiation-associated gene 5. J. Exp. Med., 205, 1601-1610. (Pubitemid 351962024)
25. Malathi, K., Dong, B., Gale, M. Jr. and Silverman, R.H. (2007) Small self-RNA generated by RNase L amplifies antiviral innate immunity. Nature, 448, 816-819. (Pubitemid 47266340)
26. Takahasi, K., Yoneyama, M., Nishihori, T., Hirai, R., Kumeta, H., Narita, R., Gale, M. Jr., Inagaki, F. and Fujita, T. (2008) Nonself RNA-sensing mechanism of RIG-I helicase and activation of antiviral immune responses. Mol. Cell, 29, 428-440.
27. Li, X., Lu, C., Stewart, M., Xu, H., Strong, R.K., Igumenova, T. and Li, P. (2009) Structural basis of double-stranded RNA recognition by the RIG-I like receptor MDA5. Arch. Biochem. Biophys., 488, 23-33.
28. 0-triphosphate sensor of RIG-I. Mol Cell, 29, 169-179. (Pubitemid 351172822)
29. Pippig, D.A., Hellmuth, J.C., Cui, S., Kirchhofer, A., Lammens, K., Lammens, A., Schmidt, A., Rothenfusser, S. and Hopfner, K.P. (2009) The regulatory domain of the RIG-I family ATPase LGP2 senses double-stranded RNA. Nucleic Acids Res, 37, 2014-2025.
30. 0 triphosphate double-stranded RNA recognitiion by RIG-I C-terminal domain. Structure, 18, 1032-1043.
31. 0-ppp RNA pattern recognition by the innate immune receptor RIG-I. Nat. Struct. Mol. Biol., 17, 781-787.
32. Otwinowski, Z. and Minor, W. (1997) Processing of X-ray diffraction data by collected in oscillation mode. Methods Enzymol., 276, 307-326. (Pubitemid 27085611)
33. CCP4. (1994) The CCP4 suite: programs for protein crystallography. Acta Crystallogr. D Biol. Crystallogr., 50, 760-763.
34. Jones, T.A. and kjeldgaard, M. (1997) Electron-density map interpretation. Methods Enzymol., 277, 173-208. (Pubitemid 27390922)
35. Brunger, A.T., Adams, P.D., Clore, G.M., DeLano, W.L., Gros, P., Grosse-Kunstleve, R.W., Jiang, J.S., Kuszewski, J., Nilges, M., Pannu, N.S. et al. (1998) Crystallography & NMR system: A new software suite for macromolecular structure determination. Acta Crystallogr. D Biol. Crystallogr., 54, 905-921.
36. Lawrence, M.C. and Colman, P.M. (1993) Shape complementarity at protein/protein interfaces. J. Mol. Biol., 234, 946-950. (Pubitemid 24027225)
37. Schlee, M., Hartmann, E., Coch, C., Wimmenauer, V., Janke, M., Barchet, W. and Hartmann, G. (2009) Approaching the RNA ligand for RIG-I? Immunol. Rev., 227, 66-74.
38. Takahasi, K., Kumeta, H., Tsuduki, N., Narita, R., Shigemoto, T., Hirai, R., Yoneyama, M., Horiuchi, M., Ogura, K., Fujita, T. et al. (2009) Solution structures of cytosolic RNA sensors MDA5 and LGP2 C-terminal domains: Identification of the RNA recognition loop in RIG-I like receptors. J. Biol. Chem., 284, 17465-17474.