Structural studies of the giant mimivirus.

Abstract:

:Mimivirus is the largest known virus whose genome and physical size are comparable to some small bacteria, blurring the boundary between a virus and a cell. Structural studies of Mimivirus have been difficult because of its size and long surface fibers. Here we report the use of enzymatic digestions to remove the surface fibers of Mimivirus in order to expose the surface of the viral capsid. Cryo-electron microscopy (cryoEM) and atomic force microscopy were able to show that the 20 icosahedral faces of Mimivirus capsids have hexagonal arrays of depressions. Each depression is surrounded by six trimeric capsomers that are similar in structure to those in many other large, icosahedral double-stranded DNA viruses. Whereas in most viruses these capsomers are hexagonally close-packed with the same orientation in each face, in Mimivirus there are vacancies at the systematic depressions with neighboring capsomers differing in orientation by 60 degrees . The previously observed starfish-shaped feature is well-resolved and found to be on each virus particle and is associated with a special pentameric vertex. The arms of the starfish fit into the gaps between the five faces surrounding the unique vertex, acting as a seal. Furthermore, the enveloped nucleocapsid is accurately positioned and oriented within the capsid with a concave surface facing the unique vertex. Thus, the starfish-shaped feature and the organization of the nucleocapsid might regulate the delivery of the genome to the host. The structure of Mimivirus, as well as the various fiber components observed in the virus, suggests that the Mimivirus genome includes genes derived from both eukaryotic and prokaryotic organisms. The three-dimensional cryoEM reconstruction reported here is of a virus with a volume that is one order of magnitude larger than any previously reported molecular assembly studied at a resolution of equal to or better than 65 Angstroms.

journal_name

PLoS Biol

journal_title

PLoS biology

authors

Xiao C,Kuznetsov YG,Sun S,Hafenstein SL,Kostyuchenko VA,Chipman PR,Suzan-Monti M,Raoult D,McPherson A,Rossmann MG

doi

10.1371/journal.pbio.1000092

subject

Has Abstract

pub_date

2009-04-28 00:00:00

pages

e92

issue

4

eissn

1544-9173

issn

1545-7885

pii

08-PLBI-RA-4258

journal_volume

7

pub_type

杂志文章
  • WRAP53 is essential for Cajal body formation and for targeting the survival of motor neuron complex to Cajal bodies.

    abstract::The WRAP53 gene gives rise to a p53 antisense transcript that regulates p53. This gene also encodes a protein that directs small Cajal body-specific RNAs to Cajal bodies. Cajal bodies are nuclear organelles involved in diverse functions such as processing ribonucleoproteins important for splicing. Here we identify the...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000521

    authors: Mahmoudi S,Henriksson S,Weibrecht I,Smith S,Söderberg O,Strömblad S,Wiman KG,Farnebo M

    更新日期:2010-11-02 00:00:00

  • The fat controller: adipocyte development.

    abstract::Obesity is a condition characterized by excess adipose tissue that results from positive energy balance and is the most common metabolic disorder in the industrialized world. The obesity epidemic shows no sign of slowing, and it is increasingly a global problem. Serious clinical problems associated with obesity includ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001436

    authors: Stephens JM

    更新日期:2012-01-01 00:00:00

  • Multiple locus linkage analysis of genomewide expression in yeast.

    abstract::With the ability to measure thousands of related phenotypes from a single biological sample, it is now feasible to genetically dissect systems-level biological phenomena. The genetics of transcriptional regulation and protein abundance are likely to be complex, meaning that genetic variation at multiple loci will infl...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0030267

    authors: Storey JD,Akey JM,Kruglyak L

    更新日期:2005-08-01 00:00:00

  • Multimodal sensory information is represented by a combinatorial code in a sensorimotor system.

    abstract::A ubiquitous feature of the nervous system is the processing of simultaneously arriving sensory inputs from different modalities. Yet, because of the difficulties of monitoring large populations of neurons with the single resolution required to determine their sensory responses, the cellular mechanisms of how populati...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2004527

    authors: Follmann R,Goldsmith CJ,Stein W

    更新日期:2018-10-15 00:00:00

  • A Speculative History of DNA: What If Oswald Avery Had Died in 1934?

    abstract::This speculative Essay explores the consequences of the imagined premature death of Oswald Avery, who in 1944 provided evidence that genes are made of DNA. Four imaginary alternate routes to the genetic function of DNA are outlined, each of which highlights different aspects of the actual process of discovery. ...

    journal_title:PLoS biology

    pub_type: 传,历史文章,杂志文章

    doi:10.1371/journal.pbio.2001197

    authors: Cobb M

    更新日期:2016-12-22 00:00:00

  • A systematic approach to pair secretory cargo receptors with their cargo suggests a mechanism for cargo selection by Erv14.

    abstract::The endoplasmic reticulum (ER) is the site of synthesis of secreted and membrane proteins. To exit the ER, proteins are packaged into COPII vesicles through direct interaction with the COPII coat or aided by specific cargo receptors. Despite the fundamental role of such cargo receptors in protein traffic, only a few h...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001329

    authors: Herzig Y,Sharpe HJ,Elbaz Y,Munro S,Schuldiner M

    更新日期:2012-01-01 00:00:00

  • The fifth adaptor protein complex.

    abstract::Adaptor protein (AP) complexes sort cargo into vesicles for transport from one membrane compartment of the cell to another. Four distinct AP complexes have been identified, which are present in most eukaryotes. We report the existence of a fifth AP complex, AP-5. Tagged AP-5 localises to a late endosomal compartment i...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001170

    authors: Hirst J,Barlow LD,Francisco GC,Sahlender DA,Seaman MN,Dacks JB,Robinson MS

    更新日期:2011-10-01 00:00:00

  • Science incubators: synthesis centers and their role in the research ecosystem.

    abstract::How should funding agencies enable researchers to explore high-risk but potentially high-reward science? One model that appears to work is the NSF-funded synthesis center, an incubator for community-led, innovative science. ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001468

    authors: Rodrigo A,Alberts S,Cranston K,Kingsolver J,Lapp H,McClain C,Smith R,Vision T,Weintraub J,Wiegmann B

    更新日期:2013-01-01 00:00:00

  • Structure-guided recombination creates an artificial family of cytochromes P450.

    abstract::Creating artificial protein families affords new opportunities to explore the determinants of structure and biological function free from many of the constraints of natural selection. We have created an artificial family comprising 3,000 P450 heme proteins that correctly fold and incorporate a heme cofactor by recombi...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0040112

    authors: Otey CR,Landwehr M,Endelman JB,Hiraga K,Bloom JD,Arnold FH

    更新日期:2006-05-01 00:00:00

  • Target genes of the MADS transcription factor SEPALLATA3: integration of developmental and hormonal pathways in the Arabidopsis flower.

    abstract::The molecular mechanisms by which floral homeotic genes act as major developmental switches to specify the identity of floral organs are still largely unknown. Floral homeotic genes encode transcription factors of the MADS-box family, which are supposed to assemble in a combinatorial fashion into organ-specific multim...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000090

    authors: Kaufmann K,Muiño JM,Jauregui R,Airoldi CA,Smaczniak C,Krajewski P,Angenent GC

    更新日期:2009-04-21 00:00:00

  • A signaling protease required for melanization in Drosophila affects resistance and tolerance of infections.

    abstract::Organisms evolve two routes to surviving infections-they can resist pathogen growth (resistance) and they can endure the pathogenesis of infection (tolerance). The sum of these two properties together defines the defensive capabilities of the host. Typically, studies of animal defenses focus on either understanding re...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0060305

    authors: Ayres JS,Schneider DS

    更新日期:2008-12-09 00:00:00

  • A20-deficient mast cells exacerbate inflammatory responses in vivo.

    abstract::Mast cells are implicated in the pathogenesis of inflammatory and autoimmune diseases. However, this notion based on studies in mast cell-deficient mice is controversial. We therefore established an in vivo model for hyperactive mast cells by specifically ablating the NF-κB negative feedback regulator A20. While A20 d...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001762

    authors: Heger K,Fierens K,Vahl JC,Aszodi A,Peschke K,Schenten D,Hammad H,Beyaert R,Saur D,van Loo G,Roers A,Lambrecht BN,Kool M,Schmidt-Supprian M

    更新日期:2014-01-01 00:00:00

  • Measuring global trends in the status of biodiversity: red list indices for birds.

    abstract::The rapid destruction of the planet's biodiversity has prompted the nations of the world to set a target of achieving a significant reduction in the rate of loss of biodiversity by 2010. However, we do not yet have an adequate way of monitoring progress towards achieving this target. Here we present a method for produ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0020383

    authors: Butchart SH,Stattersfield AJ,Bennun LA,Shutes SM,Akçakaya HR,Baillie JE,Stuart SN,Hilton-Taylor C,Mace GM

    更新日期:2004-12-01 00:00:00

  • Adaptation to Temporally Fluctuating Environments by the Evolution of Maternal Effects.

    abstract::All organisms live in temporally fluctuating environments. Theory predicts that the evolution of deterministic maternal effects (i.e., anticipatory maternal effects or transgenerational phenotypic plasticity) underlies adaptation to environments that fluctuate in a predictably alternating fashion over maternal-offspri...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002388

    authors: Dey S,Proulx SR,Teotónio H

    更新日期:2016-02-24 00:00:00

  • Shifting sugars and shifting paradigms.

    abstract::No organism lives in a constant environment. Based on classical studies in molecular biology, many have viewed microbes as following strict rules for shifting their metabolic activities when prevailing conditions change. For example, students learn that the bacterium Escherichia coli makes proteins for digesting lacto...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002068

    authors: Siegal ML

    更新日期:2015-02-17 00:00:00

  • Correction: Publication reform to safeguard wildlife from researcher harm.

    abstract::[This corrects the article DOI: 10.1371/journal.pbio.3000193.]. ...

    journal_title:PLoS biology

    pub_type: 杂志文章,已发布勘误

    doi:10.1371/journal.pbio.3000752

    authors: Field KA,Paquet PC,Artelle K,Proulx G,Brook RK,Darimont CT

    更新日期:2020-05-18 00:00:00

  • Assessing evidence for a pervasive alteration in tropical tree communities.

    abstract::In Amazonian tropical forests, recent studies have reported increases in aboveground biomass and in primary productivity, as well as shifts in plant species composition favouring fast-growing species over slow-growing ones. This pervasive alteration of mature tropical forests was attributed to global environmental cha...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0060045

    authors: Chave J,Condit R,Muller-Landau HC,Thomas SC,Ashton PS,Bunyavejchewin S,Co LL,Dattaraja HS,Davies SJ,Esufali S,Ewango CE,Feeley KJ,Foster RB,Gunatilleke N,Gunatilleke S,Hall P,Hart TB,Hernández C,Hubbell SP,Itoh A,

    更新日期:2008-03-04 00:00:00

  • Time Adaptation Shows Duration Selectivity in the Human Parietal Cortex.

    abstract::Although psychological and computational models of time estimation have postulated the existence of neural representations tuned for specific durations, empirical evidence of this notion has been lacking. Here, using a functional magnetic resonance imaging (fMRI) adaptation paradigm, we show that the inferior parietal...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002262

    authors: Hayashi MJ,Ditye T,Harada T,Hashiguchi M,Sadato N,Carlson S,Walsh V,Kanai R

    更新日期:2015-09-17 00:00:00

  • Rapid antigen diversification through mitotic recombination in the human malaria parasite Plasmodium falciparum.

    abstract::Malaria parasites possess the remarkable ability to maintain chronic infections that fail to elicit a protective immune response, characteristics that have stymied vaccine development and cause people living in endemic regions to remain at risk of malaria despite previous exposure to the disease. These traits stem fro...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000271

    authors: Zhang X,Alexander N,Leonardi I,Mason C,Kirkman LA,Deitsch KW

    更新日期:2019-05-13 00:00:00

  • GAD2 on chromosome 10p12 is a candidate gene for human obesity.

    abstract::The gene GAD2 encoding the glutamic acid decarboxylase enzyme (GAD65) is a positional candidate gene for obesity on Chromosome 10p11-12, a susceptibility locus for morbid obesity in four independent ethnic populations. GAD65 catalyzes the formation of gamma-aminobutyric acid (GABA), which interacts with neuropeptide Y...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0000068

    authors: Boutin P,Dina C,Vasseur F,Dubois S,Corset L,Séron K,Bekris L,Cabellon J,Neve B,Vasseur-Delannoy V,Chikri M,Charles MA,Clement K,Lernmark A,Froguel P

    更新日期:2003-12-01 00:00:00

  • A dual-specific macrophage colony-stimulating factor antagonist of c-FMS and αvβ3 integrin for osteoporosis therapy.

    abstract::There is currently a demand for new highly efficient and specific drugs to treat osteoporosis, a chronic bone disease affecting millions of people worldwide. We have developed a combinatorial strategy for engineering bispecific inhibitors that simultaneously target the unique combination of c-FMS and αvβ3 integrin, wh...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2002979

    authors: Zur Y,Rosenfeld L,Keshelman CA,Dalal N,Guterman-Ram G,Orenbuch A,Einav Y,Levaot N,Papo N

    更新日期:2018-08-24 00:00:00

  • An opposing function of paralogs in balancing developmental synapse maturation.

    abstract::The disc-large (DLG)-membrane-associated guanylate kinase (MAGUK) family of proteins forms a central signaling hub of the glutamate receptor complex. Among this family, some proteins regulate developmental maturation of glutamatergic synapses, a process vulnerable to aberrations, which may lead to neurodevelopmental d...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2006838

    authors: Favaro PD,Huang X,Hosang L,Stodieck S,Cui L,Liu YZ,Engelhardt KA,Schmitz F,Dong Y,Löwel S,Schlüter OM

    更新日期:2018-12-26 00:00:00

  • Heterochromatin delays CRISPR-Cas9 mutagenesis but does not influence the outcome of mutagenic DNA repair.

    abstract::Genome editing occurs in the context of chromatin, which is heterogeneous in structure and function across the genome. Chromatin heterogeneity is thought to affect genome editing efficiency, but this has been challenging to quantify due to the presence of confounding variables. Here, we develop a method that exploits ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2005595

    authors: Kallimasioti-Pazi EM,Thelakkad Chathoth K,Taylor GC,Meynert A,Ballinger T,Kelder MJE,Lalevée S,Sanli I,Feil R,Wood AJ

    更新日期:2018-12-12 00:00:00

  • The signal sequence coding region promotes nuclear export of mRNA.

    abstract::In eukaryotic cells, most mRNAs are exported from the nucleus by the transcription export (TREX) complex, which is loaded onto mRNAs after their splicing and capping. We have studied in mammalian cells the nuclear export of mRNAs that code for secretory proteins, which are targeted to the endoplasmic reticulum membran...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0050322

    authors: Palazzo AF,Springer M,Shibata Y,Lee CS,Dias AP,Rapoport TA

    更新日期:2007-12-01 00:00:00

  • A Src-like inactive conformation in the abl tyrosine kinase domain.

    abstract::The improper activation of the Abl tyrosine kinase results in chronic myeloid leukemia (CML). The recognition of an inactive conformation of Abl, in which a catalytically important Asp-Phe-Gly (DFG) motif is flipped by approximately 180 degrees with respect to the active conformation, underlies the specificity of the ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0040144

    authors: Levinson NM,Kuchment O,Shen K,Young MA,Koldobskiy M,Karplus M,Cole PA,Kuriyan J

    更新日期:2006-05-01 00:00:00

  • Feeling fooled: Texture contaminates the neural code for tactile speed.

    abstract::Motion is an essential component of everyday tactile experience: most manual interactions involve relative movement between the skin and objects. Much of the research on the neural basis of tactile motion perception has focused on how direction is encoded, but less is known about how speed is. Perceived speed has been...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000431

    authors: Delhaye BP,O'Donnell MK,Lieber JD,McLellan KR,Bensmaia SJ

    更新日期:2019-08-27 00:00:00

  • Adaptive evolution and the birth of CTCF binding sites in the Drosophila genome.

    abstract::Changes in the physical interaction between cis-regulatory DNA sequences and proteins drive the evolution of gene expression. However, it has proven difficult to accurately quantify evolutionary rates of such binding change or to estimate the relative effects of selection and drift in shaping the binding evolution. He...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001420

    authors: Ni X,Zhang YE,Nègre N,Chen S,Long M,White KP

    更新日期:2012-01-01 00:00:00

  • Birds, blooms, and evolving diversity.

    abstract::In this Open Highlight, Senior Editor Lauren Richardson features exciting new Open Access research into how species evolve their characteristic traits. ...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.3000020

    authors: Richardson LA

    更新日期:2018-10-04 00:00:00

  • A new type of Na(+)-driven ATP synthase membrane rotor with a two-carboxylate ion-coupling motif.

    abstract::The anaerobic bacterium Fusobacterium nucleatum uses glutamate decarboxylation to generate a transmembrane gradient of Na⁺. Here, we demonstrate that this ion-motive force is directly coupled to ATP synthesis, via an F₁F₀-ATP synthase with a novel Na⁺ recognition motif, shared by other human pathogens. Molecular model...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001596

    authors: Schulz S,Iglesias-Cans M,Krah A,Yildiz O,Leone V,Matthies D,Cook GM,Faraldo-Gómez JD,Meier T

    更新日期:2013-01-01 00:00:00

  • Language evolution and complexity considerations: The no half-Merge fallacy.

    abstract::Recently, prominent theoretical linguists have argued for an explicit scenario for the evolution of the human language capacity on the basis of its computational properties. Concretely, the simplicity of a minimalist formulation of the operation Merge, which allows humans to recursively compute hierarchical relations ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000389

    authors: Martins PT,Boeckx C

    更新日期:2019-11-27 00:00:00