Atomic structure reveals the unique capsid organization of a dsRNA virus

Proceedings of the National Academy of Sciences of the United States of America

Volumn 106, Issue 11, 2009, Pages 4225-4230

  Pan, Junhua ^a   Dong, Liping ^a,f   Lin, Li ^a   Ochoa, Wendy F ^b,g   Sinkovits, Robert S ^b   Havens, Wendy M ^d   Nibert, Max L ^e   Baker, Timothy S ^b,c   Ghabrial, Said A ^d   Tao, Yizhi Jane ^a  

^a RICE UNIVERSITY   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c UNIVERSITY OF CALIFORNIA SAN DIEGO   (United States)

^d UNIVERSITY OF KENTUCKY   (United States)

^e HARVARD MEDICAL SCHOOL   (United States)

^f BAYLOR COLLEGE OF MEDICINE   (United States)

^g BURNHAM INSTITUTE   (United States)

Author keywords

Capsid assembly; Mycovirus; Partitiviridae; Partitivirus

Indexed keywords

CAPSID PROTEIN; DIMER; GLYCOPROTEIN E; PROTEIN SUBUNIT;

AMINO TERMINAL SEQUENCE; ARTICLE; ATOM; CONTROLLED STUDY; CRYOELECTRON MICROSCOPY; CRYSTAL STRUCTURE; DNA PACKAGING; FLAVIVIRUS; GENOME; PENICILLIUM; PENICILLIUM STOLONIFERUM VIRUS F; PRIORITY JOURNAL; PROBABILITY; PROTEIN RNA BINDING; RNA TRANSCRIPTION; RNA VIRUS; VIRUS CAPSID;

CAPSID; CAPSID PROTEINS; CRYOELECTRON MICROSCOPY; CRYSTALLIZATION; MODELS, BIOLOGICAL; RNA VIRUSES; RNA, DOUBLE-STRANDED; RNA-BINDING PROTEINS; TRANSCRIPTION, GENETIC;

DSRNA VIRUSES; FLAVIVIRUS; MIRIDAE; MYCOVIRUS; PARTITIVIRIDAE; PARTITIVIRUS; PENICILLIUM STOLONIFERUM VIRUS F;

EID: 63449086336     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.0812071106     Document Type: Article

References (42)

1. Harrison SC (2007) Principles of virus structure. Fields Virology, eds Knipe DM, Howley PM (Lippincott Williams & Wilkins, Philadelphia), 5th Ed, pp 59-98.
2. Lawton JA, Estes MK, Prasad BVV (1997) Three-dimensional visualization of mRNA release from actively transcribing rotavirus particles. Nat Struct Biol 4:118-121.
3. Zhang X, Walker SB, Chipman PR, Nibert ML, Baker TS (2003) Reovirus polymerase λ3 localized by cryo-electron microscopy of virions at a resolution of 7.6 Å. Nat Struct Biol 10:1011-1018.
4. Tao Y, Farsetta DL, Nibert ML, Harrison SC (2002) RNA synthesis in a cage: Structural studies of reovirus polymerase A3. Cell 111:733-745.
5. Prasad BVV, et al. (1996) Visualization of ordered genomic RNA and localization of transcriptional complexes in rotavirus. Nature 382:471-473.
6. Gouet P, et al. (1999) The highly ordered double-stranded RNA genome of bluetongue virus revealed by crystallography. Cell 97:481-490.
7. Bottcher B, et al. (1997) Three-dimensional structure of infectious bursal disease virus determined by electron cryomicroscopy. J Virol 71:325-330.
8. Caston JR, et al. (1997) Structure of L-A virus: A specialized compartment for the transcription and replication of double-stranded RNA. J Cell Biol 138:975-985.
9. Caston JR, et al. (2003) Three-dimensional structure of Penicillium chrysogenum virus: A double-stranded RNA virus with a genuine T=1 capsid. J Mol Biol 331:417-431.
10. Dryden KA, et al. (1993) Early steps in reovirus infection are associated with dramatic changes in supramolecular structure and protein conformation: Analysis of virions and subviral particles by cryoelectron microscopy and image reconstruction. J Cell Biol 122:1023-1041.
11. Hill CL, et al. (1999) The structure of a cypovirus and the functional organization of dsRNA viruses. Nat Struct Biol 6:565-568.
12. Huiskonen JT, et al. (2006) Structure of the bacteriophage φ6 nucleocapsid suggestsa mechanism for sequential RNA packaging. Structure (London)14:1039-1048.
13. Jaalinoja HT, Huiskonen JT, Butcher SJ (2007) Electron cryomicroscopy comparison of the architectures of the enveloped bacteriophages φ6 and φ8. Structure (London)15:157-167.
14. Ochoa WF, et al. (2008) Partitivirus structure reveals a 120-subunit, helix-rich capsid with distinctive surface arches formed by quasisymmetric coat-protein dimers. Structure (London)16:776-786.
15. Prasad BVV, Wang GJ, Clerx JP, Chiu W (1988) Three-dimensional structure of rotavirus. J Mol Biol 199:269-275.
16. Yu X, Jin L, Zhou ZH (2008) 3.88 A structure of cytoplasmic polyhedrosis virus by cryo-electron microscopy. Nature 453:415-419.
17. Zhou ZH, et al. (2001) Electron cryomicroscopy and bioinformatics suggest protein fold models for rice dwarf virus. Nat Struct Biol 8:868-873.
18. Reinisch KM, Nibert ML, Harrison SC (2000) Structure of the reovirus core at 3.6-A resolution. Nature 404:960-967.
19. Grimes JM, et al. (1998) The atomic structure of the bluetongue virus core. Nature 395:470-478.
20. Nakagawa A, et al. (2003) The atomic structure of rice dwarf virus reveals the self- assembly mechanism of component proteins. Structure (London)11:1227-1238.
21. Coulibaly F, et al. (2005) The birnavirus crystal structure reveals structural relationships among icosahedral viruses. Cell 120:761-772.
22. Naitow H, Tang J, Canady M, Wickner RB, Johnson JE (2002) L-Avirusat 3.4-Å resolution reveals particle architecture and mRNA decapping mechanism. Nat Struct Biol 9:725-728.
23. Ghabrial SA, Ochoa WF, Baker TS, Nibert ML (2008) Partitiviruses: General features. Encyclopedia of Virology, eds Mahy BWJ, van Regenmortel MHV (Elsevier, Oxford), 3rd Ed, Vol 4, pp 68-75.
24. Kim JW, Choi EY, Lee JI (2005) Genome organization and expression of the Penicillium stoloniferum virus F. Genes 31:175-183.
25. Bozarth RF, Wood HA Mandelbrot A (1971) The Penicillium stoloniferum virus complex: Two similar double-stranded RNA virus-like particles in a single cell. Virology 45:516-523.
26. Kuhn RJ, et al. (2002) Structure of dengue virus: Implications for flavivirus organization, maturation, and fusion. Cell 108:717-725.
27. Hopper P, Harrison SC, Sauer RT (1984) Structure of tomato bushy stunt virus. V. Coat protein sequence determination and its structural implications. J Mol Biol 177:701-713.
28. Reddy VS, Johnson JE (2005) Structure-derived insights into virus assembly. Adv Virus Res 64:45-68.
29. Tang J, et al. (2006) The role of subunit hinges and molecular "switches" in the control of viral capsid polymorphism. J Struct Biol 154:59-67.
30. Buck KW (1978) Semiconservative replication of double-stranded RNA by a virion- associated RNA polymerase. Biochem Biophys Res Commun 84:639-645.
31. Chater KF, Morgan DH (1974) Ribonucleic acid synthesis by isolated viruses of Penicillium stoloniferum. J Gen Virol 24:307-317.
32. Buck KW, Kempson-Jones GF (1974) Capsid polypeptides of two viruses isolated from Penicillium stoloniferum. J Gen Virol 22:441-445.
33. Yan X, Dryden KA, Tang J, Baker TS (2007) Ab initio random model method facilitates 3D reconstruction of icosahedral particles. J Struct Biol 157:211-225.
34. Yan X, Sinkovits RS, Baker TS (2007) AUTO3DEM: An automated and high-throughput program for image reconstruction of icosahedral particles. J Struct Biol 157:73-82.
35. van Heel M, Schatz M (2005) Fourier shell correlation threshold criteria. J Struct Biol 151:250-262.
36. Otwinowski Z, Minor W(1997) Processing of X-raydiffraction data collected in oscillation mode. Methods Enzymol 276:307-326.
37. JonesTA(1992) A set of averaging programs. Molecular Replacement, eds Dodson EJ, Gover S, Wolf W(SERC Daresbury Laboratory, Warrington, UK), pp 91-105.
38. Collaborative Computational Project No. 4(1994)The CCP4 suite: Programs for protein crystallography. Acta Crystallogr D 50:760-763.
39. Jones TA, Zou JY, Cowan SW, Kjeldgaard M (1991) Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr A 47:110-119.
40. Brunger AT, et al (1998) Crystallography & NMR system: A new software suite for macromolecular structure determination. Acta Crystallogr D 54:905-921.
41. Laskowski RA, MacArthur MW, Moss DS, Thomton JM (1993) PROCHECK: A program to check the stereochemical quality of protein structures. J Appl Crystallogr 26:283-291.
42. Kraulis P (1991) MOLSCRIPT: Aprogram to produce both detailed and schematic plots of protein structures. J Appl Crystallogr 24:946-950.