Adding the Third Dimension to Virus Life Cycles: Three-Dimensional Reconstruction of Icosahedral Viruses from Cryo-Electron Micrographs

Viruses are cellular parasites. The linkage between viral and host functions makes the study of a viral life cycle an important key to cellular functions. A deeper understanding of many aspects of viral life cycles has emerged from coordinated molecular and structural studies carried out with a wide range of viral pathogens. Structural studies of viruses by means of cryo-electron microscopy and three-dimensional image reconstruction methods have grown explosively in the last decade. Here we review the use of cryo-electron microscopy for the determination of the structures of a number of icosahedral viruses. These studies span more than 20 virus families. Representative examples illustrate the use of moderate- to low-resolution (7- to 35-A) structural analyses to illuminate functional aspects of viral life cycles including host recognition, viral attachment, entry, genome release, viral transcription, translation, proassembly, maturation, release, and transmission, as well as mechanisms of host defense. The success of cryo-electron microscopy in combination with three-dimensional image reconstruction for icosahedral viruses provides a firm foundation for future explorations of more-complex viral pathogens, including the vast number that are nonspherical or nonsymmetrical.

[1]  T. Baker,et al.  Structure of a human rhinovirus-bivalently bound antibody complex: implications for viral neutralization and antibody flexibility. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[2]  Stephen D Fuller,et al.  Low pH induces swiveling of the glycoprotein heterodimers in the Semliki forest virus spike complex , 1995, Cell.

[3]  Judit Jané-Valbuena,et al.  Reovirus Virion-Like Particles Obtained by Recoating Infectious Subvirion Particles with Baculovirus-Expressed s3 Protein: an Approach for Analyzing s3 Functions during Virus Entry , 1999, Journal of Virology.

[4]  A. Klug,et al.  Measurement and compensation of defocusing and aberrations by Fourier processing of electron micrographs , 1971 .

[5]  M. Yeager,et al.  Three-dimensional structure of rhesus rotavirus by cryoelectron microscopy and image reconstruction , 1990, The Journal of cell biology.

[6]  G. Schoehn,et al.  Adenovirus 3 penton dodecahedron exhibits structural changes of the base on fibre binding. , 1996, The EMBO journal.

[7]  M S Chapman,et al.  The three-dimensional structure of canine parvovirus and its functional implications. , 1991, Science.

[8]  W. Chiu,et al.  Visualization of ordered genomic RNA and localization of transcriptional complexes in rotavirus , 1996, Nature.

[9]  S. Curry,et al.  The poliovirus 135S particle is infectious , 1996, Journal of virology.

[10]  T S Baker,et al.  The capsid of small papova viruses contains 72 pentameric capsomeres: direct evidence from cryo-electron-microscopy of simian virus 40. , 1989, Biophysical journal.

[11]  J. V. Etten,et al.  Comparative properties of bacteriophage phi6 and phi6 nucleocapsid , 1976, Journal of virology.

[12]  T. Dokland,et al.  Characterization of the capsid associating activity of bacteriophage P4's Psu protein. , 1993, Virology.

[13]  M G Rossmann,et al.  The structure of a neutralized virus: canine parvovirus complexed with neutralizing antibody fragment. , 1994, Structure.

[14]  J. E. Mellema,et al.  Three-dimensional image reconstruction of turnip yellow mosaic virus. , 1972, Journal of Molecular Biology.

[15]  S. D. Fuller,et al.  Image reconstruction from cryo‐electron micrographs reveals the morphopoietic mechanism in the P2‐P4 bacteriophage system. , 1992, The EMBO journal.

[16]  E. Hewat,et al.  Cryoelectron microscopy of macromolecular complexes , 1994, Biology of the cell.

[17]  P. Ray,et al.  Model for arrangement of minor structural proteins in head of bacteriophage λ , 1975, Nature.

[18]  E. Six The helper dependence of satellite bacteriophage P4: which gene functions of bacteriophage P2 are needed by P4? , 1975, Virology.

[19]  J. Dubochet,et al.  Electron microscopy of frozen water and aqueous solutions , 1982 .

[20]  H. G. Heide,et al.  Eine tiefkühlkette zum überführen von wasserhaltigen biologischen objekten ins elektronenmikroskop , 1974 .

[21]  Yoshinori Fujiyoshi,et al.  Development of a superfluid helium stage for high-resolution electron microscopy , 1991 .

[22]  Robert L. Garcea,et al.  Self-assembly of purified polyomavirus capsid protein VP1 , 1986, Cell.

[23]  Wah Chiu,et al.  Three-dimensional structure of the HSV1 nucleocapsid , 1989, Cell.

[24]  S. Fuller,et al.  A symmetry mismatch at the site of RNA packaging in the polymerase complex of dsRNA bacteriophage phi6. , 1999, Journal of molecular biology.

[25]  J. Cohen,et al.  The isolation of suppressible nonsense mutants of bacteriophage phi6. , 1976, Virology.

[26]  W. Chiu,et al.  Three-dimensional visualization of the rotavirus hemagglutinin structure , 1993, Cell.

[27]  N. Unwin,et al.  Analysis of transient structures by cryo-microscopy combined with rapid mixing of spray droplets. , 1994, Ultramicroscopy.

[28]  T S Baker,et al.  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 , 1993, The Journal of cell biology.

[29]  P. Stewart,et al.  Difference imaging of adenovirus: bridging the resolution gap between X‐ray crystallography and electron microscopy. , 1993, The EMBO journal.

[30]  F P Booy,et al.  Three-dimensional structures of maturable and abortive capsids of equine herpesvirus 1 from cryoelectron microscopy , 1990, Journal of virology.

[31]  P. Roy,et al.  Three-dimensional reconstruction of baculovirus expressed bluetongue virus core-like particles by cryo-electron microscopy. , 1992, Virology.

[32]  L. Liljas,et al.  Structure of spherical viruses. , 1991, International journal of biological macromolecules.

[33]  B L Trus,et al.  A strategy for determining the orientations of refractory particles for reconstruction from cryo-electron micrographs with particular reference to round, smooth-surfaced, icosahedral viruses. , 1999, Journal of structural biology.

[34]  J. Dubochet,et al.  Improved anticontaminator for cryo‐electron microscopy with a Philips EM 400 , 1984 .

[35]  W. Chiu Electron microscopy of frozen, hydrated biological specimens. , 1986, Annual review of biophysics and biophysical chemistry.

[36]  Thilo Stehle,et al.  Structure of murine polyomavirus complexed with an oligosaccharide receptor fragment , 1994, Nature.

[37]  Z. Zhou,et al.  Visualization of Protein-RNA Interactions in Cytoplasmic Polyhedrosis Virus , 1999, Journal of Virology.

[38]  M. Kielian,et al.  Membrane fusion and the alphavirus life cycle. , 1995, Advances in virus research.

[39]  C. Venien-Bryan,et al.  The organization of the spike complex of Semliki Forest virus. , 1994, Journal of molecular biology.

[40]  I. K. Robinson,et al.  Structure of the expanded state of tomato bushy stunt virus , 1982, Nature.

[41]  Peter D. Kwong,et al.  Crystal structure of an HIV-binding recombinant fragment of human CD4 , 1990, Nature.

[42]  H. Murialdo Bacteriophage lambda DNA maturation and packaging. , 1991, Annual review of biochemistry.

[43]  J. Conway,et al.  Localization of the N terminus of hepatitis B virus capsid protein by peptide-based difference mapping from cryoelectron microscopy. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[44]  A C Steven,et al.  Proteolytic and conformational control of virus capsid maturation: the bacteriophage HK97 system. , 1995, Journal of molecular biology.

[45]  P. Prevelige,et al.  Subunit conformational changes accompanying bacteriophage P22 capsid maturation. , 1993, Biochemistry.

[46]  John E. Johnson,et al.  Identification of a Fab interaction footprint site on an icosahedral virus by cryoelectron microscopy and X-ray crystallography , 1992, Nature.

[47]  D. Renz,et al.  Characteristics of Sindbis virus temperature-sensitive mutants in cultured BHK-21 and Aedes albopictus (Mosquito) cells , 1976, Journal of virology.

[48]  R A Crowther,et al.  Difference imaging reveals ordered regions of RNA in turnip yellow mosaic virus. , 1996, Structure.

[49]  T. Baker,et al.  Structure determination of an Fab fragment that neutralizes human rhinovirus 14 and analysis of the Fab-virus complex. , 1994, Journal of molecular biology.

[50]  K. Richards,et al.  Letter to the editor: Capsid structure of bacteriophage lambda , 1974 .

[51]  I. Rayment,et al.  Three-dimensional structure of myosin subfragment-1 from electron microscopy of sectioned crystals , 1991, The Journal of cell biology.

[52]  J. Zou,et al.  Improved methods for building protein models in electron density maps and the location of errors in these models. , 1991, Acta crystallographica. Section A, Foundations of crystallography.

[53]  T. Marlovits,et al.  Structure of a Neutralizing Antibody Bound Monovalently to Human Rhinovirus 2 , 1998, Journal of Virology.

[54]  T. Baker,et al.  Structures of bovine and human papillomaviruses. Analysis by cryoelectron microscopy and three-dimensional image reconstruction. , 1991, Biophysical journal.

[55]  B. Böttcher,et al.  Three-dimensional structure of infectious bursal disease virus determined by electron cryomicroscopy , 1997, Journal of virology.

[56]  D. Rubin,et al.  Infectious rotavirus enters cells by direct cell membrane penetration, not by endocytosis , 1988, Journal of virology.

[57]  S. Fuller,et al.  Intermediates in the assembly pathway of the double‐stranded RNA virus φ6 , 1997, The EMBO journal.

[58]  D. Bamford,et al.  Lipid-Containing Bacteriophages , 1988 .

[59]  J. Dubochet,et al.  Envelope structure of Semliki Forest virus reconstructed from cryo-electron micrographs , 1986, Nature.

[60]  A. Klug,et al.  Physical principles in the construction of regular viruses. , 1962, Cold Spring Harbor symposia on quantitative biology.

[61]  T. Baker,et al.  A model-based approach for determining orientations of biological macromolecules imaged by cryoelectron microscopy. , 1996, Journal of structural biology.

[62]  J. Dubochet,et al.  Frozen aqueous suspensions , 1982 .

[63]  I. Wilson,et al.  Structure of the haemagglutinin membrane glycoprotein of influenza virus at 3 Å resolution , 1981, Nature.

[64]  R. Henderson,et al.  A side-entry cold holder for cryo-electron microscopy. , 1991, Ultramicroscopy.

[65]  W. Chiu,et al.  Structural Localization of the E3 Glycoprotein in Attenuated Sindbis Virus Mutants , 1998, Journal of Virology.

[66]  M. Mayo,et al.  Virus Taxonomy , 1995, Archives of Virology Supplement 10.

[67]  R. Henderson,et al.  Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy. , 1990, Journal of molecular biology.

[68]  P. Gottlieb,et al.  Production of a polyhedral particle in Escherichia coli from a cDNA copy of the large genomic segment of bacteriophage phi 6 , 1988, Journal of virology.

[69]  B. Trus,et al.  Two antibodies that neutralize papillomavirus by different mechanisms show distinct binding patterns at 13 A resolution. , 1998, Journal of molecular biology.

[70]  S. Provencher,et al.  Three-dimensional reconstruction from electron micrographs of disordered specimens. II. Implementation and results. , 1988, Ultramicroscopy.

[71]  B. Trus,et al.  The capsid architecture of channel catfish virus, an evolutionarily distant herpesvirus, is largely conserved in the absence of discernible sequence homology with herpes simplex virus. , 1996, Virology.

[72]  M. Hagensee,et al.  Three-dimensional structure of vaccinia virus-produced human papillomavirus type 1 capsids , 1994, Journal of virology.

[73]  S D Fuller,et al.  High-resolution icosahedral reconstruction: fulfilling the promise of cryo-electron microscopy. , 1997, Structure.

[74]  R. Frindt,et al.  A double Faraday cup attachment for relative intensity measurements on an electron microscope , 1982 .

[75]  John E. Johnson,et al.  The refined three-dimensional structure of an insect virus at 2.8 A resolution. , 1994, Journal of molecular biology.

[76]  D. Bamford,et al.  Isolation of a phospholipid-free protein shell of bacteriophage PRD1, an Escherichia coli virus with an internal membrane. , 1993, Virology.

[77]  R. Milligan,et al.  Molecular structure determination of crystalline specimens in frozen aqueous solutions. , 1984, Ultramicroscopy.

[78]  B. Böttcher,et al.  Peptides that block hepatitis B virus assembly: analysis by cryomicroscopy, mutagenesis and transfection , 1998, The EMBO journal.

[79]  J Frank,et al.  The ribosome at higher resolution--the donut takes shape. , 1997, Current opinion in structural biology.

[80]  M G Rossmann,et al.  Structure of a human rhinovirus complexed with its receptor molecule. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[81]  I. Rayment,et al.  Polyoma virus capsid structure at 22.5 Å resolution , 1982, Nature.

[82]  G J Wang,et al.  Three-dimensional structure of rotavirus. , 1988, Journal of molecular biology.

[83]  M. Showe,et al.  Kinetic factors and form determination of the head of bacteriophage T4. , 1978, Proceedings of the National Academy of Sciences of the United States of America.

[84]  Z H Zhou,et al.  Refinement of herpesvirus B-capsid structure on parallel supercomputers. , 1998, Biophysical journal.

[85]  M. Ghadiri,et al.  An animal virus-derived peptide switches membrane morphology: possible relevance to nodaviral transfection processes. , 1999, Biochemistry.

[86]  S D Fuller,et al.  The first step: activation of the Semliki Forest virus spike protein precursor causes a localized conformational change in the trimeric spike. , 1998, Journal of molecular biology.

[87]  G. Nemerow,et al.  Integrin txv/35 Selectively Promotes Adenovirus Mediated Cell Membrane Permeabilization , 1994 .

[88]  T S Baker,et al.  Internal/structures containing transcriptase-related proteins in top component particles of mammalian orthoreovirus. , 1998, Virology.

[89]  R A Crowther,et al.  Three-dimensional image reconstructions of some small spherical viruses. , 1972, Cold Spring Harbor symposia on quantitative biology.

[90]  John E. Johnson,et al.  PRINCIPLES OF VIRUS STRUCTURE , 1999 .

[91]  J. King,et al.  Three-dimensional transformation of capsids associated with genome packaging in a bacterial virus. , 1993, Journal of molecular biology.

[92]  R. Crowther,et al.  Procedures for three-dimensional reconstruction of spherical viruses by Fourier synthesis from electron micrographs. , 1971, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.

[93]  J. Dubochet,et al.  VITRIFICATION OF PURE WATER FOR ELECTRON MICROSCOPY , 1981 .

[94]  R. Staden,et al.  Nucleotide sequence of bacteriophage G4 DNA , 1978, Nature.

[95]  R. Kuhn,et al.  Putative receptor binding sites on alphaviruses as visualized by cryoelectron microscopy. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[96]  B. L. Trus,et al.  Liquid-crystalline, phage-like packing of encapsidated DNA in herpes simplex virus , 1991, Cell.

[97]  John E. Johnson,et al.  Functional implications of quasi-equivalence in a T = 3 icosahedral animal virus established by cryo-electron microscopy and X-ray crystallography. , 1994, Structure.

[98]  A. Steven,et al.  Nucleocapsid mass and capsomer protein stoichiometry in equine herpesvirus 1: scanning transmission electron microscopic study , 1989, Journal of virology.

[99]  B. Prasad,et al.  Expression of tobacco ringspot virus capsid protein and satellite RNA in insect cells and three-dimensional structure of tobacco ringspot virus-like particles. , 1995, Virology.

[100]  W. Chiu,et al.  Assembly of VP26 in herpes simplex virus-1 inferred from structures of wild-type and recombinant capsids , 1995, Nature Structural Biology.

[101]  J. Cooper,et al.  Concentration of solutes during preparation of aqueous suspensions for cryo‐electron microscopy , 1990, Journal of microscopy.

[102]  K. Downing,et al.  Spot-scan imaging in transmission electron microscopy. , 1991, Science.

[103]  S. Casjens,et al.  Locations and amounts of major structural proteins in bacteriophage lambda. , 1974, Journal of molecular biology.

[104]  B L Trus,et al.  The effects of radiation damage on the structure of frozen hydrated HSV-1 capsids. , 1993, Journal of structural biology.

[105]  A. Paredes,et al.  Disulfide bonds are essential for the stability of the Sindbis virus envelope. , 1992, Virology.

[106]  M. Rossmann The viral canyon , 1993, Current Biology.

[107]  P. Wingfield,et al.  Visualization of a 4-helix bundle in the hepatitis B virus capsid by cryo-electron microscopy , 1997, Nature.

[108]  S. Fuller,et al.  The T=4 envelope of sindbis virus is organized by interactions with a complementary T=3 capsid , 1987, Cell.

[109]  W. Joklik Studies on the effect of chymotrypsin on reovirions. , 1972, Virology.

[110]  D. Shore,et al.  Determination of capsid size by satellite bacteriophage P4. , 1978, Proceedings of the National Academy of Sciences of the United States of America.

[111]  G. Nemerow,et al.  Integrins α v β 3 and α v β 5 promote adenovirus internalization but not virus attachment , 1993, Cell.

[112]  B L Trus,et al.  Distinct monoclonal antibodies separately label the hexons or the pentons of herpes simplex virus capsid. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[113]  L. Philipson,et al.  Structure and assembly of adenoviruses. , 1984, Current topics in microbiology and immunology.

[114]  S. Harrison,et al.  Tomato bushy stunt virus at 2.9 Å resolution , 1978, Nature.

[115]  P. Stewart,et al.  Structure of Adenovirus Complexed with Its Internalization Receptor, αvβ5 Integrin , 1999, Journal of Virology.

[116]  R A Crowther,et al.  The structure of Nudaurelia capensis beta virus: the first example of a capsid with icosahedral surface symmetry T-4. , 1974, The Journal of general virology.

[117]  T Larsen,et al.  The capsid size-determining protein Sid forms an external scaffold on phage P4 procapsids. , 1995, Journal of molecular biology.

[118]  T. Smith,et al.  Picornaviruses: epitopes, canyons, and pockets. , 1999, Advances in virus research.

[119]  R. M. Burnett,et al.  Adenovirus polypeptide IX revealed as capsid cement by difference images from electron microscopy and crystallography. , 1989, The EMBO journal.

[120]  T S Baker,et al.  A method for establishing the handedness of biological macromolecules. , 1997, Journal of structural biology.

[121]  John E. Johnson,et al.  Structures of the native and swollen forms of cowpea chlorotic mottle virus determined by X-ray crystallography and cryo-electron microscopy. , 1995, Structure.

[122]  J. Dubochet,et al.  Emerging techniques: Cryo-electron microscopy of vitrified biological specimens , 1985 .

[123]  S. Finkel,et al.  DNA sequence of satellite bacteriophage P4. , 1990, Nucleic acids research.

[124]  M. Rossmann,et al.  The structure of an insect parvovirus (Galleria mellonella densovirus) at 3.7 A resolution. , 1998, Structure.

[125]  T. Baker,et al.  Localization of a C-terminal region of lambda2 protein in reovirus cores , 1997, Journal of virology.

[126]  B. Böttcher,et al.  Determination of the fold of the core protein of hepatitis B virus by electron cryomicroscopy , 1997, Nature.

[127]  J. Wahlberg,et al.  Membrane fusion of Semliki Forest virus involves homotrimers of the fusion protein , 1992, Journal of virology.

[128]  B. Trus,et al.  The herpes simplex virus procapsid: structure, conformational changes upon maturation, and roles of the triplex proteins VP19c and VP23 in assembly. , 1996, Journal of molecular biology.

[129]  The structure of satellite tobacco necrosis virus , 1981 .

[130]  T. Baker,et al.  In vitro assembly of cowpea chlorotic mottle virus from coat protein expressed in Escherichia coli and in vitro-transcribed viral cDNA. , 1995, Virology.

[131]  John E. Johnson,et al.  Quasi-equivalent viruses: a paradigm for protein assemblies. , 1997, Journal of molecular biology.

[132]  W. Chiu,et al.  Localization of VP4 neutralization sites in rotavirus by three-dimensional cryo-electron microscopy , 1990, Nature.

[133]  Timothy S. Baker,et al.  Neutralizing antibody to human rhinovirus 14 penetrates the receptor-binding canyon , 1996, Nature.

[134]  J. Turner,et al.  An optimized Faraday cage design for electron beam current measurements , 1975 .

[135]  F Zemlin,et al.  Desired features of a cryoelectron microscope for the electron crystallography of biological material. , 1992, Ultramicroscopy.

[136]  Wah Chiu,et al.  Pushing back the limits of electron cryomicroscopy , 1997, Nature Structural Biology.

[137]  R. Liddington,et al.  Structure of simian virus 40 at 3.8-Å resolution , 1991, Nature.

[138]  M. Rossmann,et al.  Structure of Sindbis virus core protein reveals a chymotrypsin-like serine proteinase and the organization of the virion , 1991, Nature.

[139]  T. Baker,et al.  Structural analysis of the Spiroplasma virus, SpV4: implications for evolutionary variation to obtain host diversity among the Microviridae. , 1998, Structure.

[140]  D H Bamford,et al.  Bacteriophage phi 6 envelope elucidated by chemical cross-linking, immunodetection, and cryoelectron microscopy. , 1992, Virology.

[141]  Yoshinori Fujiyoshi,et al.  Atomic model of plant light-harvesting complex by electron crystallography , 1994, Nature.

[142]  B L Trus,et al.  The making and breaking of symmetry in virus capsid assembly: glimpses of capsid biology from cryoelectron microscopy , 1997, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[143]  M. Baker,et al.  Structure of Double-Shelled Rice Dwarf Virus , 1998, Journal of Virology.

[144]  T. Baker,et al.  Structural studies on the mechanisms of antibody-mediated neutralization of human rhinovirus , 1995 .

[145]  G. Schoehn,et al.  Structure of Broadhaven virus by cryoelectron microscopy: correlation of structural and antigenic properties of Broadhaven virus and bluetongue virus outer capsid proteins. , 1997, Virology.

[146]  E. Six,et al.  The P2-like Phages and Their Parasite, P4 , 1988 .

[147]  M. Cyrklaff,et al.  The three‐dimensional structure of reovirus obtained by cryo‐electron microscopy. , 1991, The EMBO journal.

[148]  John E. Johnson,et al.  Structure of a human common cold virus and functional relationship to other picornaviruses , 1985, Nature.

[149]  K. Downing,et al.  Cold stage design for high resolution electron microscopy of biological materials. , 1990, Electron microscopy reviews.

[150]  J. Tomassini,et al.  Inhibition of rhinovirus attachment by neutralizing monoclonal antibodies and their Fab fragments , 1989, Journal of virology.

[151]  R. Arbeit,et al.  Regulation of icosahedral virion capsid size by the in vivo activity of a cloned gene product. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[152]  John E. Johnson,et al.  Icosahedral RNA virus structure. , 1989, Annual review of biochemistry.

[153]  R. Henderson The potential and limitations of neutrons, electrons and X-rays for atomic resolution microscopy of unstained biological molecules , 1995, Quarterly Reviews of Biophysics.

[154]  J A Lawton,et al.  Automated software package for icosahedral virus reconstruction. , 1996, Journal of structural biology.

[155]  P A Thuman-Commike,et al.  PTOOL: a software package for the selection of particles from electron cryomicroscopy spot-scan images. , 1996, Journal of structural biology.

[156]  S. Harrison,et al.  Virus structure: high-resolution perspectives. , 1983, Advances in virus research.

[157]  R. Henderson,et al.  Molecular structure determination by electron microscopy of unstained crystalline specimens. , 1975, Journal of molecular biology.

[158]  K. Downing,et al.  Observations of restricted beam-induced specimen motion with small-spot illumination. , 1988, Ultramicroscopy.

[159]  P. Roy,et al.  Structure of correctly self-assembled bluetongue virus-like particles. , 1994, Journal of structural biology.

[160]  D. Stuart,et al.  The atomic structure of the bluetongue virus core , 1998, Nature.

[161]  W. Chiu,et al.  Cryo electron microscopy of spherical viruses: An application to rotaviruses☆ , 1987 .

[162]  A W Smith,et al.  Three-dimensional structure of calicivirus. , 1994, Journal of molecular biology.

[163]  Marin van Heel,et al.  Similarity measures between images , 1987 .

[164]  A Klug,et al.  Electron microscopy of the stacked disk aggregate of tobacco mosaic virus protein. I. Three-dimensional image reconstruction. , 1974, Journal of molecular biology.

[165]  B L Trus,et al.  Fungal virus capsids, cytoplasmic compartments for the replication of double-stranded RNA, formed as icosahedral shells of asymmetric Gag dimers. , 1994, Journal of molecular biology.

[166]  D. Curiel,et al.  Adenovirus type 5 fiber knob binds to MHC class I α2 domain at the surface of human epithelial and B lymphoblastoid cells , 1997, The EMBO journal.

[167]  Benes L. Trus,et al.  Novel structural features of bovine papillomavirus capsid revealed by a three-dimensional reconstruction to 9 Å resolution , 1997, Nature Structural Biology.

[168]  W W Newcomb,et al.  Conserved features in papillomavirus and polyomavirus capsids. , 1996, Journal of molecular biology.

[169]  J. Finch The surface structure of polyoma virus. , 1974, The Journal of general virology.

[170]  W Chiu,et al.  An atomic model of the outer layer of the bluetongue virus core derived from X-ray crystallography and electron cryomicroscopy. , 1997, Structure.

[171]  J M Kenney,et al.  Evolutionary conservation in the hepatitis B virus core structure: comparison of human and duck cores. , 1995, Structure.

[172]  D. Huylebroeck,et al.  In vitro mutagenesis of a full-length cDNA clone of Semliki Forest virus: the small 6,000-molecular-weight membrane protein modulates virus release , 1991, Journal of virology.

[173]  T S Baker,et al.  Identification of spherical virus particles in digitized images of entire electron micrographs. , 1997, Journal of structural biology.

[174]  A. Klug,et al.  Three Dimensional Reconstructions of Spherical Viruses by Fourier Synthesis from Electron Micrographs , 1970, Nature.

[175]  R A Crowther,et al.  Structural analysis of macromolecular assemblies by image reconstruction from electron micrographs. , 1975, Annual review of biochemistry.

[176]  T. Gallagher,et al.  Assembly-dependent maturation cleavage in provirions of a small icosahedral insect ribovirus , 1988, Journal of virology.

[177]  J F Conway,et al.  Visualization of three-dimensional density maps reconstructed from cryoelectron micrographs of viral capsids. , 1996, Journal of structural biology.

[178]  B. Trus,et al.  Structure of the herpes simplex virus capsid: peptide A862-H880 of the major capsid protein is displayed on the rim of the capsomer protrusions. , 1997, Virology.

[179]  J. Dubochet,et al.  ELECTRON BEAM INDUCED “VITRIFIED ICE” , 1983 .

[180]  M. Karplus,et al.  Crystallographic R Factor Refinement by Molecular Dynamics , 1987, Science.

[181]  T S Baker,et al.  Structure of human rhinovirus complexed with Fab fragments from a neutralizing antibody , 1993, Journal of virology.

[182]  R. Johnston,et al.  Three-dimensional structure of a membrane-containing virus. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[183]  M. Rossmann,et al.  DNA packaging intermediates of bacteriophage φX174. , 1995, Structure.

[184]  P. Gottlieb,et al.  In vitro replication, packaging, and transcription of the segmented double-stranded RNA genome of bacteriophage phi 6: studies with procapsids assembled from plasmid-encoded proteins , 1990, Journal of bacteriology.

[185]  M. Marsh,et al.  Interactions between a satellite bacteriophage and its helper. , 1976, Journal of molecular biology.

[186]  John E. Johnson,et al.  The structure of cucumber mosaic virus: cryoelectron microscopy, X-ray crystallography, and sequence analysis. , 1997, Virology.

[187]  Alasdair C Steven,et al.  Encapsidated Conformation of Bacteriophage T7 DNA , 1997, Cell.

[188]  F Metoz,et al.  Lattice defects in microtubules: protofilament numbers vary within individual microtubules , 1992, The Journal of cell biology.

[189]  John E. Johnson,et al.  Ordered duplex RNA controls capsid architecture in an icosahedral animal virus , 1993, Nature.

[190]  R. Williams,et al.  Electron microscopy of tobacco mosaic virus under conditions of minimal beam exposure. , 1970, Journal of molecular biology.

[191]  M. Stewart Electron Microscopy of Biological Macromolecules , 1990 .

[192]  R. Wade,et al.  Electron microscope transfer functions for partially coherent axial illumination and chromatic defocus spread , 1977 .

[193]  Thomas P. J. Garrett,et al.  Atomic structure of a fragment of human CD4 containing two immunoglobulin-like domains , 1990, Nature.

[194]  E. Hewat,et al.  Bivalent binding of a neutralising antibody to a calicivirus involves the torsional flexibility of the antibody hinge. , 1997, Journal of molecular biology.

[195]  D. T. Brown,et al.  Protein-protein interactions in an alphavirus membrane , 1991, Journal of virology.

[196]  M. Rossmann,et al.  Cryo-electron microscopy studies of empty capsids of human parvovirus B19 complexed with its cellular receptor. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[197]  C. Bazinet,et al.  The DNA translocating vertex of dsDNA bacteriophage. , 1985, Annual review of microbiology.

[198]  W. Bragg The Determination of Parameters in Crystal Structures by means of Fourier Series , 1929 .

[199]  W. Chiu,et al.  High resolution cryo system designed for JEM 100CX electron microscope. , 1987, Ultramicroscopy.

[200]  P. Argos,et al.  Is Sindbis a simple picornavirus with an envelope? , 1987, The EMBO journal.

[201]  Y. Li,et al.  Protein-RNA interactions in an icosahedral virus at 3.0 A resolution. , 1989, Science.

[202]  F. Thon,et al.  Phase Contrast Electron Microscopy , 1971 .

[203]  T S Baker,et al.  Magnification calibration and the determination of spherical virus diameters using cryo-microscopy. , 1989, Ultramicroscopy.

[204]  S. Harrison,et al.  The envelope glycoprotein from tick-borne encephalitis virus at 2 Å resolution , 1995, Nature.

[205]  T. Baker,et al.  Structure of the tubulin dimer in zinc-induced sheets. , 1978, Journal of molecular biology.

[206]  F. Sanger,et al.  Nucleotide sequence of bacteriophage lambda DNA. , 1982, Journal of molecular biology.

[207]  B L Trus,et al.  Finding a needle in a haystack: detection of a small protein (the 12-kDa VP26) in a large complex (the 200-MDa capsid of herpes simplex virus). , 1994, Proceedings of the National Academy of Sciences of the United States of America.

[208]  A. Klug,et al.  The structure of viruses of the papilloma-polyoma type 3. Structure of rabbit papilloma virus, with an appendix on the topography of contrast in negative-staining for electron-microscopy. , 1965, Journal of molecular biology.

[209]  T. Baker,et al.  Direct imaging of interactions between an icosahedral virus and conjugate F(ab) fragments by cryoelectron microscopy and X-ray crystallography. , 1994, Virology.

[210]  M G Rossmann,et al.  Viral cell recognition and entry. , 1994, Protein science : a publication of the Protein Society.

[211]  J Jakana,et al.  Three-dimensional structure of scaffolding-containing phage p22 procapsids by electron cryo-microscopy. , 1996, Journal of molecular biology.

[212]  A Klug,et al.  Structure of viruses of the papilloma-polyoma type. IV. Analysis of tilting experiments in the electron microscope. , 1968, Journal of molecular biology.

[213]  B. Trus,et al.  Herpes simplex virus capsids assembled in insect cells infected with recombinant baculoviruses: structural authenticity and localization of VP26 , 1995, Journal of virology.

[214]  S. Fuller,et al.  Visualization of fusion activation in the Semliki Forest virus spike. , 1994, Structure.

[215]  R A Crowther,et al.  MRC image processing programs. , 1996, Journal of structural biology.

[216]  Wai-ming Lee,et al.  Antibody-Mediated Neutralization of Human Rhinovirus 14 Explored by Means of Cryoelectron Microscopy and X-Ray Crystallography of Virus-Fab Complexes , 1998, Journal of Virology.

[217]  J A Lawton,et al.  Three-dimensional structural analysis of recombinant rotavirus-like particles with intact and amino-terminal-deleted VP2: implications for the architecture of the VP2 capsid layer , 1997, Journal of virology.

[218]  D. Blaas,et al.  Structure of a neutralizing antibody bound bivalently to human rhinovirus 2. , 1996, The EMBO journal.

[219]  W. Chiu,et al.  Three-Dimensional Structure of Rotavirus-Fab Complex , 1990 .

[220]  M. Nibert,et al.  Sigma 1 protein of mammalian reoviruses extends from the surfaces of viral particles , 1988, Journal of virology.

[221]  R. Wade,et al.  Cryoelectron microscopy of microtubules. , 1993, Journal of structural biology.

[222]  T S Baker,et al.  Low-resolution density maps from atomic models: how stepping "back" can be a step "forward". , 1999, Journal of structural biology.

[223]  M. Rossmann,et al.  The structure of the two amino-terminal domains of human ICAM-1 suggests how it functions as a rhinovirus receptor and as an LFA-1 integrin ligand. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[224]  D I Stuart,et al.  Structure of the complex of an Fab fragment of a neutralizing antibody with foot‐and‐mouth disease virus: positioning of a highly mobile antigenic loop , 1997, The EMBO journal.

[225]  B. Gowen,et al.  Cryo-electron microscopy reveals ordered domains in the immature HIV-1 particle , 1997, Current Biology.

[226]  John E. Johnson,et al.  Comparison of the native CCMV virion with in vitro assembled CCMV virions by cryoelectron microscopy and image reconstruction. , 1998, Virology.

[227]  A Leith,et al.  SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields. , 1996, Journal of structural biology.

[228]  M. Estes,et al.  Three-dimensional structure of baculovirus-expressed Norwalk virus capsids , 1994, Journal of virology.

[229]  P. Roy,et al.  3-D reconstruction of bluetongue virus tubules using cryoelectron microscopy. , 1992, Journal of structural biology.

[230]  M van Heel,et al.  A new generation of the IMAGIC image processing system. , 1996, Journal of structural biology.

[231]  M. F. Smith,et al.  Quantitative energy-filtered electron microscopy of biological molecules in ice. , 1992, Ultramicroscopy.

[232]  P. Wingfield,et al.  Localization of the C terminus of the assembly domain of hepatitis B virus capsid protein: implications for morphogenesis and organization of encapsidated RNA. , 1997, Proceedings of the National Academy of Sciences of the United States of America.

[233]  J. King,et al.  Structure of phage P22 coat protein aggregates formed in the absence of the scaffolding protein. , 1978, Journal of molecular biology.

[234]  J. Frank,et al.  Three‐dimensional reconstruction from a single‐exposure, random conical tilt series applied to the 50S ribosomal subunit of Escherichia coli , 1987, Journal of microscopy.

[235]  M. Rossmann,et al.  Crystallographic and cryo EM analysis of virion-receptor interactions. , 1994, Archives of virology. Supplementum.

[236]  W Chiu,et al.  Role of the scaffolding protein in P22 procapsid size determination suggested by T = 4 and T = 7 procapsid structures. , 1998, Biophysical Journal.

[237]  P. Roy,et al.  Structure of bluetongue virus particles by cryoelectron microscopy. , 1992, Journal of structural biology.

[238]  T. A. Jones,et al.  Structure of satellite tobacco necrosis virus at 3.0 A resolution. , 1982, Journal of molecular biology.

[239]  E. Mandelkow,et al.  Unstained microtubules studied by cryo-electron microscopy. Substructure, supertwist and disassembly. , 1985, Journal of molecular biology.

[240]  M. Bayer,et al.  The capsid structure of bacteriophage lambda. , 1973, Virology.

[241]  I. Katsura Structure and inherent properties of the bacteriophage lambda head shell. I. Polyheads produced by two defective mutants in the major head protein. , 1978, Journal of molecular biology.

[242]  R. M. Burnett,et al.  Molecular composition of the adenovirus type 2 virion , 1985, Journal of virology.

[243]  H. Eggers,et al.  Structure of simian virus 40. II. Symmetry and components of the virus particle. , 1967, Virology.

[244]  M. Chidambaram,et al.  Transcriptional control of capsid size in the P2:P4 bacteriophage system. , 1978, Journal of molecular biology.

[245]  J. Dubochet,et al.  Cryo-electron microscopy of viruses , 1984, Nature.

[246]  R. H. Wade A brief look at imaging and contrast transfer , 1992 .

[247]  D. Stuart,et al.  Structures of orbivirus VP7: implications for the role of this protein in the viral life cycle. , 1997, Structure.

[248]  R. Markham,et al.  A study of the self-assembly process in a small spherical virus. Formation of organized structures from protein subunits in vitro. , 1967, Virology.

[249]  J. Dubochet,et al.  Organization of double‐stranded DNA in bacteriophages: a study by cryo‐electron microscopy of vitrified samples. , 1987, The EMBO journal.

[250]  S. Harrison,et al.  Structure of tomato bushy stunt virus. II. Comparison of results obtained by electron microscopy and x-ray diffraction. , 1975, Journal of molecular biology.

[251]  R. A. Crowther,et al.  Three-dimensional structure of hepatitis B virus core particles determined by electron cryomicroscopy , 1994, Cell.

[252]  E. Mandelkow,et al.  Microtubule dynamics and microtubule caps: a time-resolved cryo- electron microscopy study , 1991, The Journal of cell biology.

[253]  J Jakana,et al.  Protein subunit structures in the herpes simplex virus A-capsid determined from 400 kV spot-scan electron cryomicroscopy. , 1994, Journal of molecular biology.

[254]  D. DeRosier,et al.  The reconstruction of a three-dimensional structure from projections and its application to electron microscopy , 1970, Proceedings of the Royal Society of London. A. Mathematical and Physical Sciences.

[255]  Timothy S Baker,et al.  Assembly of a Tailed Bacterial Virus and Its Genome Release Studied in Three Dimensions , 1998, Cell.

[256]  T. Baker,et al.  Three-dimensional reconstruction of icosahedral particles--the uncommon line. , 1996, Journal of structural biology.

[257]  B. Sherry,et al.  Use of monoclonal antibodies to identify four neutralization immunogens on a common cold picornavirus, human rhinovirus 14 , 1986, Journal of virology.

[258]  T. Baker,et al.  Three-Dimensional Structure of Aleutian Mink Disease Parvovirus: Implications for Disease Pathogenicity , 1999, Journal of Virology.

[259]  M. Walker,et al.  Observation of transient disorder during myosin subfragment-1 binding to actin by stopped-flow fluorescence and millisecond time resolution electron cryomicroscopy: evidence that the start of the crossbridge power stroke in muscle has variable geometry. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[260]  A. Klug,et al.  STRUCTURE OF VIRUSES OF THE PAPILLOMA-POLYOMA TYPE. I. HUMAN WART VIRUS. , 1965, Journal of molecular biology.

[261]  B. Trus,et al.  Structure of the herpes simplex virus capsid. Molecular composition of the pentons and the triplexes. , 1993, Journal of molecular biology.

[262]  A. Tsugita,et al.  Outer surface protein of bacteriophage lambda. , 1980, Journal of molecular biology.

[263]  Virus versus antibody. , 1997, Structure.

[264]  W. Grochulski,et al.  Use of radial density plots to calibrate image magnification for frozen-hydrated specimens. , 1993, Ultramicroscopy.

[265]  Roger M. Burnett,et al.  Image reconstruction reveals the complex molecular organization of adenovirus , 1991, Cell.

[266]  B. Prasad,et al.  The structure of aquareovirus shows how the different geometries of the two layers of the capsid are reconciled to provide symmetrical interactions and stabilization. , 1996, Structure.

[267]  R. Hull,et al.  Swelling of isometric and of bacilliform plant virus nucleocapsids is required for virus-specific protein synthesis in vitro. , 1986, Virology.

[268]  J. V. Van Etten,et al.  RNA Polymerase Activity Associated with Bacteriophage φ6 , 1973 .

[269]  B. Trus,et al.  Hexon-only binding of VP26 reflects differences between the hexon and penton conformations of VP5, the major capsid protein of herpes simplex virus , 1997, Journal of virology.

[270]  J. N. Varghese,et al.  Structure of the influenza virus glycoprotein antigen neuraminidase at 2.9 Å resolution , 1983, Nature.

[271]  John E. Johnson,et al.  The structure of alfalfa mosaic virus capsid protein assembled as a T=1 icosahedral particle at 4.0-A resolution , 1997, Journal of virology.

[272]  G. Nemerow,et al.  Integrin alpha v beta 5 selectively promotes adenovirus mediated cell membrane permeabilization , 1994, The Journal of cell biology.

[273]  T. Baker,et al.  IRIS Explorer Software for Radial-Depth Cueing Reovirus Particles and Other Macromolecular Structures Determined by Cryoelectron Microscopy and Image Reconstruction , 1997, Journal of structural biology.

[274]  A. Kingsman,et al.  Cryo-electron microscopy structure of yeast Ty retrotransposon virus-like particles , 1997, Journal of virology.

[275]  T. Dokland,et al.  Structural transitions during maturation of bacteriophage lambda capsids. , 1993, Journal of molecular biology.

[276]  F P Booy,et al.  Electron microscopy of frozen biological suspensions , 1983, Journal of microscopy.

[277]  J. Dubochet,et al.  Electron microscopy of frozen hydrated specimens: preparation and characteristics. , 1986, Methods in enzymology.

[278]  B Sheehan,et al.  AVS software for visualization in molecular microscopy. , 1996, Journal of structural biology.

[279]  W. Chiu,et al.  Visualization of Tegument-Capsid Interactions and DNA in Intact Herpes Simplex Virus Type 1 Virions , 1999, Journal of Virology.

[280]  B. Prasad,et al.  Three-dimensional structure of single-shelled bluetongue virus , 1992, Journal of virology.

[281]  T. Jeng,et al.  Containment system for the preparation of vitrified-hydrated virus specimens. , 1988, Journal of electron microscopy technique.

[282]  E. Six,et al.  Bacteriophage P4: a satellite virus depending on a helper such as prophage P2. , 1973, Virology.

[283]  D. Caspar Bacteriorhodopsin — at last! , 1990, Nature.

[284]  D H Bamford,et al.  DNA packaging orders the membrane of bacteriophage PRD1. , 1995, The EMBO journal.

[285]  T S Baker,et al.  Cauliflower mosaic virus: a 420 subunit (T = 7), multilayer structure. , 1992, Virology.

[286]  J. Dubochet,et al.  Cryo-electron microscopy of vitrified specimens , 1988, Quarterly Reviews of Biophysics.

[287]  P L Stewart,et al.  Cryo‐EM visualization of an exposed RGD epitope on adenovirus that escapes antibody neutralization , 1997, The EMBO journal.

[288]  W. Chiu,et al.  Structural studies of virus-antibody complexes by electron cryomicroscopy and X-ray crystallography , 1994 .

[289]  M. F. Smith,et al.  Quantitation of molecular densities by cryo-electron microscopy. Determination of the radial density distribution of tobacco mosaic virus. , 1992, Journal of molecular biology.

[290]  S. Harrison,et al.  Tomato bushy stunt virus at 5.5-Å resolution , 1977, Nature.

[291]  M. Unser,et al.  Magnification mismatches between micrographs: corrective procedures and implications for structural analysis. , 1992, Ultramicroscopy.

[292]  T. Baker,et al.  The three-dimensional structure of frozen-hydrated Nudaurelia capensis beta virus, a T = 4 insect virus. , 1990, Journal of structural biology.

[293]  B. Gowen,et al.  Structure of the human cytomegalovirus B capsid by electron cryomicroscopy and image reconstruction. , 1998, Journal of structural biology.

[294]  I. Katsura,et al.  Structure and inherent properties of the bacteriophage lambda head shell. VII. Molecular design of the form-determining major capsid protein. , 1983, Journal of molecular biology.

[295]  W Chiu,et al.  Prospects for using an IVEM with a FEG for imaging macromolecules towards atomic resolution. , 1993, Ultramicroscopy.

[296]  P. Gottlieb,et al.  In vitro assembly of infectious nucleocapsids of bacteriophage phi 6: formation of a recombinant double-stranded RNA virus. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[297]  Alasdair C. Steven,et al.  Structure of L-A Virus: A Specialized Compartment for the Transcription and Replication of Double-stranded RNA , 1997, The Journal of cell biology.

[298]  W Chiu,et al.  Improved common line-based icosahedral particle image orientation estimation algorithms. , 1997, Ultramicroscopy.

[299]  T. Baker,et al.  In Vitro Recoating of Reovirus Cores with Baculovirus-Expressed Outer-Capsid Proteins μ1 and ς3 , 1999, Journal of Virology.

[300]  G Bricogne,et al.  Maximum-entropy three-dimensional reconstruction with deconvolution of the contrast transfer function: a test application with adenovirus. , 1996, Journal of structural biology.

[301]  Timothy S. Baker,et al.  The three-dimensional structure of frozen-hydrated bacteriophage ΦX174 , 1992 .

[302]  A. KLUG,et al.  Three dimensional image reconstruction on an extended field—a fast, stable algorithm , 1974, Nature.

[303]  K. Simons,et al.  The budding mechanisms of enveloped animal viruses. , 1980, The Journal of general virology.

[304]  C.E. Shannon,et al.  Communication in the Presence of Noise , 1949, Proceedings of the IRE.

[305]  T S Baker,et al.  Reconstruction of the three-dimensional structure of simian virus 40 and visualization of the chromatin core. , 1988, Proceedings of the National Academy of Sciences of the United States of America.

[306]  Timothy S Baker,et al.  Nucleocapsid and glycoprotein organization in an enveloped virus , 1995, Cell.

[307]  M. Breindl The structure of heated poliovirus particles. , 1971, The Journal of general virology.

[308]  M. Estes,et al.  Three-dimensional visualization of mRNA release from actively transcribing rotavirus particles , 1997, Nature Structural Biology.

[309]  Crowther Ra Three-dimensional reconstruction and the architecture of spherical viruses. , 1971 .

[310]  A. Fisher,et al.  Comparative studies of T = 3 and T = 4 icosahedral RNA insect viruses. , 1994, Archives of virology. Supplementum.

[311]  A. Mcclelland,et al.  The major human rhinovirus receptor is ICAM-1 , 1989, Cell.

[312]  P. Stewart,et al.  A Helper-Independent Adenovirus Vector with E1, E3, and Fiber Deleted: Structure and Infectivity of Fiberless Particles , 1999, Journal of Virology.

[313]  Jonathan Grimes,et al.  The crystal structure of bluetongue virus VP7 , 1995, Nature.

[314]  R. M. Burnett,et al.  Three-dimensional structure of the adenovirus major coat protein hexon. , 1986, Science.

[315]  F. A. Anderer,et al.  Structure of simian virus 40. 3. Alkaline degradation of the virus particle. , 1968, Virology.

[316]  J. Johnson Functional implications of protein-protein interactions in icosahedral viruses. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[317]  P. Wingfield,et al.  Dimorphism of hepatitis B virus capsids is strongly influenced by the C-terminus of the capsid protein. , 1996, Biochemistry.

[318]  E. Méndez,et al.  Conservation in rotaviruses of the protein region containing the two sites associated with trypsin enhancement of infectivity. , 1986, Virology.

[319]  B. Lindqvist,et al.  The polarity suppression factor of bacteriophage P4 is also a decoration protein of the P4 capsid. , 1992, Virology.

[320]  P. Wingfield,et al.  Hepatitis B virus capsid: localization of the putative immunodominant loop (residues 78 to 83) on the capsid surface, and implications for the distinction between c and e-antigens. , 1998, Journal of molecular biology.

[321]  T S Baker,et al.  Low resolution meets high: towards a resolution continuum from cells to atoms. , 1996, Current opinion in structural biology.

[322]  M. Nibert,et al.  Mammalian reoviruses contain a myristoylated structural protein , 1991, Journal of virology.

[323]  M. Yeager,et al.  Three‐dimensional structure of the rotavirus haemagglutinin VP4 by cryo‐electron microscopy and difference map analysis. , 1994, The EMBO journal.