The basic architecture of viruses

Subcellular Biochemistry

Volumn 68, Issue , 2013, Pages 53-75

  Castón, José R ^a   Carrascosa, José L ^a  

^a CENTRO NACIONAL DE BIOTECNOLOGÍA   (Spain)

Author keywords

Capsid; Conformational polymorphism; Helical symmetry; Icosahedral symmetry; Metastable capsid; Molecular switch; Nucleocapsid; Prolate capsid; Quasi equivalence; Triangulation number

Indexed keywords

VIRUS PROTEIN;

ANIMAL; CHEMISTRY; HUMAN; REVIEW; VIRUS; VIRUS CAPSID;

ANIMALS; CAPSID; HUMANS; VIRAL PROTEINS; VIRUSES;

EID: 84904846841     PISSN: 03060225     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-94-007-6552-8_2     Document Type: Article

References (68)

1. Harrison SC (2007) Principles of virus structure. In: Knipe DM, Howley PM, Griffin DE, Lamb RA, Martin MA, Roizman B, Strauss SE (eds) Fields virology, vol 1. Lippincott Williams & Wilkins, Philadelphia, pp 59-98
2. Dokland T (2000) Freedom and restraint: themes in virus capsid assembly. Structure Fold Des 8:R157-R162
3. Flint SJ, Enquist LW, Krug RM, Racaniello VR, Skalka AM (2000) Principles of virology. Molecular biology, pathogenesis, and control. ASM Press, Washington, DC
4. Cann AJ (2012) Principles of molecular virology. Elsevier, Amsterdam
5. Baker TS, Olson NH, Fuller SD (1999) Adding the third dimension to virus life cycles: threedimensional reconstruction of icosahedral viruses from cryo-electron micrographs. Microbiol Mol Biol Rev 63:862-922
6. Prasad BV, Schmid MF (2012) Principles of virus structural organization. Adv Exp Med Biol 726:17-47
7. Hendrix RW, Johnson JE (2012) Bacteriophage HK97 capsid assembly and maturation. Adv Exp Med Biol 726:351-363
8. Chang J, Liu X, Rochat RH, Baker ML, Chiu W (2012) Reconstructing virus structures from nanometer to near-atomic resolutions with cryo-electron microscopy and tomography. Adv Exp Med Biol 726:49-90
9. Zhou ZH (2011) Atomic resolution cryo electron microscopy of macromolecular complexes. Adv Protein Chem Struct Biol 82:1-35
10. Harrison SC, Olson AJ, Schutt CE, Winkler FK, Bricogne G (1978) Tomato bushy stunt virus at 2.9 A resolution. Nature 276:368-373
11. Hogle JM, Chow M, Filman DJ (1985) Three-dimensional structure of poliovirus at 2.9 A resolution. Science 229:1358-1365
12. Rossmann MG, Arnold E, Erickson JW, Frankenberger EA, Griffith JP, Hecht HJ, Johnson JE, Kamer G, Luo M, Mosser AG et al (1985) Structure of a human common cold virus and functional relationship to other picornaviruses. Nature 317:145-153
13. Rossmann M, Johnson J (1989) Icosahedral RNA virus structure. Annu Rev Biochem 58:533-573
14. Roberts MM, White JL, Grutter MG, Burnett RM (1986) Three-dimensional structure of the adenovirus major coat protein hexon. Science 232:1148-1151
15. Nandhagopal N, Simpson AA, Gurnon JR, Yan X, Baker TS, Graves MV, Van Etten JL, Rossmann MG (2002) The structure and evolution of the major capsid protein of a large, lipidcontaining DNA virus. Proc Natl Acad Sci U S A 99:14758-14763
16. Abrescia NG, Cockburn JJ, Grimes JM, Sutton GC, Diprose JM, Butcher SJ, Fuller SD, San Martin C, Burnett RM, Stuart DI, Bamford DH, Bamford JK (2004) Insights into assembly from structural analysis of bacteriophage PRD1. Nature 432:68-74
17. Fu CY, Johnson JE (2012) Structure and cell biology of archaeal virus STIV. Curr Opin Virol 2:122-127
18. Lomonossoff GP, Johnson JE (1991) The synthesis and structure of comovirus capsids. Prog Biophys Mol Biol 55:107-137
19. Bahar MW, Graham SC, Stuart DI, Grimes JM (2011) Insights into the evolution of a complex virus from the crystal structure of vaccinia virus D13. Structure 19:1011-1020
20. Wikoff WR, Liljas L, Duda RL, Tsuruta H, Hendrix RW, Johnson JE (2000) Topologically linked protein rings in the bacteriophage HK97 capsid. Science 289:2129-2133
21. Veesler D, Johnson JE (2012) Virus maturation. Annu Rev Biophys 41:473-496
22. Zlotnick A (2005) Theoretical aspects of virus capsid assembly. J Mol Recognit 18:479-490
23. Johnson JE (2008) Multi-disciplinary studies of viruses: the role of structure in shaping the questions and answers. J Struct Biol 163:246-253
24. Crick FH, Watson JD (1956) Structure of small viruses. Nature 177:473-475
25. Caspar DLD, Klug A (1962) Physical principles in the construction of regular viruses. Cold Spring Harbor Symp Quant Biol 27:1-24
26. Liljas L (1986) The structure of spherical viruses. Prog Biophys Mol Biol 48:1-36
27. Johnson JE, Speir JA (1997) Quasi-equivalent viruses: a paradigm for protein assemblies. J Mol Biol 269:665-675
28. Johnson JE (1996) Functional implications of protein-protein interactions in icosahedral viruses. Proc Natl Acad Sci USA 93:27-33
29. Chen DH, Baker ML, Hryc CF, DiMaio F, Jakana J, Wu W, Dougherty M, Haase-Pettingell C, Schmid MF, Jiang W, Baker D, King JA, Chiu W (2011) Structural basis for scaffoldingmediated assembly and maturation of a dsDNA virus. Proc Natl Acad Sci USA 108:1355-1360
30. Steven A, Trus B, Booy F, Cheng N, Zlotnick A, Castón J, Conway J (1997) The making and breaking of symmetry in virus capsid assembly: glimpses of capsid biology from cryoelectron microscopy. FASEB J 11:733-742
31. Zhang W, Olson NH, Baker TS, Faulkner L, Agbandje-McKenna M, Boulton MI, Davies JW, McKenna R (2001) Structure of the Maize streak virus geminate particle. Virology 279:471-477
32. Zlotnick A, Cheng N, Conway JF, Booy FP, Steven AC, Stahl SJ, Wingfield PT (1996) Dimorphism of hepatitis B virus capsids is strongly influenced by the C-terminus of the capsid protein. Biochemistry 35:7412-7421
33. Rayment I, Baker TS, Caspar DL, Murakami WT (1982) Polyoma virus capsid structure at 22.5 A resolution. Nature 295:110-115
34. Liddington RC, Yan Y, Moulai J, Sahli R, Benjamin TL, Harrison SC (1991) Structure of simian virus 40 at 3.8-A resolution. Nature 354:278-284
35. Grimes JM, Burroughs JN, Gouet P, Diprose JM, Malby R, Zientara S, Mertens PP, Stuart DI (1998) The atomic structure of the Bluetongue virus core. Nature 395:470-478
36. Reinisch KM, Nibert ML, Harrison SC (2000) Structure of the Reovirus core at 3.6 Åresolution. Nature 404:960-967
37. Naitow H, Tang J, Canady M, Wickner RB, Johnson JE (2002) L-A virus at 3.4 a resolution reveals particle architecture and mRNA decapping mechanism. Nat Struct Biol 9:725-728
38. Luque D, Gonzalez JM, Garriga D, Ghabrial SA, HavensWM, Trus B, Verdaguer N, Carrascosa JL, Caston JR (2010) The T = 1 capsid protein of penicillium chrysogenum virus is formed by a repeated helix-rich core indicative of gene duplication. J Virol 84:7256-7266
39. Bamford DH, Grimes JM, Stuart DI (2005) What does structure tell us about virus evolution? Curr Opin Struct Biol 15:655-663
40. Baker ML, Jiang W, Rixon FJ, Chiu W (2005) Common ancestry of herpesviruses and tailed DNA bacteriophages. J Virol 79:14967-14970
41. Abrescia NG, Bamford DH, Grimes JM, Stuart DI (2012) Structure unifies the viral universe. Annu Rev Biochem 81:795-822
42. Pesavento JB, Crawford SE, Estes MK, Prasad BV (2006) Rotavirus proteins: structure and assembly. Curr Top Microbiol Immunol 309:189-219
43. Coulibaly F, Chevalier C, Gutsche I, Pous J, Navaza J, Bressanelli S, Delmas B, Rey FA (2005) The birnavirus crystal structure reveals structural relationships among icosahedral viruses. Cell 120:761-772
44. Saugar I, Luque D, Ona A, Rodriguez JF, Carrascosa JL, Trus BL, Caston JR (2005) Structural polymorphism of the major capsid protein of a double-stranded RNA virus: an amphipathic alpha helix as a molecular switch. Structure 13:1007-1017
45. Luque D, Saugar I, Rodriguez JF, Verdaguer N, Garriga D, Martin CS, Velazquez-Muriel JA, Trus BL, Carrascosa JL, Caston JR (2007) Infectious bursal disease virus capsid assembly and maturation by structural rearrangements of a transient molecular switch. J Virol 81:6869-6878
46. Irigoyen N, Caston JR, Rodriguez JF (2012) Host proteolytic activity is necessary for infectious bursal disease virus capsid protein assembly. J Biol Chem 287:24473-24482
47. Yan X, Yu Z, Zhang P, Battisti AJ, Holdaway HA, Chipman PR, Bajaj C, Bergoin M, Rossmann MG, Baker TS (2009) The capsid proteins of a large, icosahedral dsDNA virus. J Mol Biol 385:1287-1299
48. Zhang X, Xiang Y, Dunigan DD, Klose T, Chipman PR, Van Etten JL, Rossmann MG (2011) Three-dimensional structure and function of the Paramecium bursaria chlorella virus capsid. Proc Natl Acad Sci U S A 108:14837-14842
49. Yan X, Chipman PR, Castberg T, Bratbak G, Baker TS (2005) The marine algal virus PpV01 has an icosahedral capsid with T = 219 quasisymmetry. J Virol 79:9236-9243
50. Xiao C, Kuznetsov YG, Sun S, Hafenstein SL, Kostyuchenko VA, Chipman PR, Suzan-Monti M, Raoult D, McPherson A, Rossmann MG (2009) Structural studies of the giant mimivirus. PLoS Biol 7:e92
51. Tao Y, Olson NH, Xu W, Anderson DL, Rossmann MG, Baker TS (1998) Assembly of a tailed bacterial virus and its genome release studied in three dimensions. Cell 95:431-437
52. Fokine A, Chipman PR, Leiman PG, Mesyanzhinov VV, Rao VB, Rossmann MG (2004) Molecular architecture of the prolate head of bacteriophage T4. Proc Natl Acad Sci U S A 101:6003-6008
53. Luque A, Reguera D (2010) The structure of elongated viral capsids. Biophys J 98:2993-3003
54. Stubbs G, Kendall A (2012) Helical viruses. Adv Exp Med Biol 726:631-658
55. Zhang R, Hryc CF, Cong Y, Liu X, Jakana J, Gorchakov R, Baker ML, Weaver SC, Chiu W (2011) 4.4 A cryo-EM structure of an enveloped alphavirus Venezuelan equine encephalitis virus. EMBO J 30:3854-3863
56. Mukhopadhyay S, Kuhn RJ, Rossmann MG (2005) A structural perspective of the flavivirus life cycle. Nat Rev Microbiol 3:13-22
57. Ganser-Pornillos BK, Yeager M, Pornillos O (2012) Assembly and architecture of HIV. Adv Exp Med Biol 726:441-465
58. Castón JR, Trus BL, Booy FP, Wickner RB, Wall JS, Steven AC (1997) Structure of L-A virus: a specialized compartment for the transcription and replication of double-stranded RNA. J Cell Biol 138:975-985
59. Luque D, Gonzalez JM, Gomez-Blanco J, Marabini R, Chichon J, Mena I, Angulo I, Carrascosa JL, Verdaguer N, Trus BL, Barcena J, Caston JR (2012) Epitope insertion at the N-terminal molecular switch of the rabbit hemorrhagic disease virus T = 3 capsid protein leads to larger T = 4 capsids. J Virol 86:6470-6480
60. Castón JR, Martínez-Torrecuadrada JL, Maraver A, Lombardo E, Rodríguez JF, Casal JI, Carrascosa JL (2001) C terminus of infectious bursal disease virus major capsid protein VP2 is involved in definition of the T number for capsid assembly. J Virol 75:10815-10828
61. Agirrezabala X, Martin-Benito J, Caston JR, Miranda R, Valpuesta JM, Carrascosa JL (2005) Maturation of phage T7 involves structural modification of both shell and inner core components. EMBO J 24:3820-3829
62. Jose J, Snyder JE, Kuhn RJ (2009) A structural and functional perspective of alphavirus replication and assembly. Future Microbiol 4:837-856
63. Buck CB, Trus BL (2012) The papillomavirus virion: a machine built to hide molecular Achilles' heels. Adv Exp Med Biol 726:403-422
64. Chiu W, Burnnett RM, Garcea RL (eds) (1997) Structural virology of viruses. Oxford University Press, New York
65. Chiu W, Johnson JE (eds) (2003) Virus structure. Advances in protein chemistry, vol 64. Academic Press, Amsterdam
66. Mahy BWJ, van Regenmortel MHV (eds) (2008) Encyclopedia of virology. Elsevier, Amsterdam
67. Patton JT (ed) (2008) Segmented double-stranded RNA viruses, structure and molecular biology. Caister Academic Press, Norfolk
68. Rossmann MG, Rao VB (eds) (2012) Viral molecular machines. Adv Exp Med Biol, vol 726. Springer, New York