当前位置： SCI文献检索 > JOURNAL OF STRUCTURAL BIOLOGY期刊下所有文献 > The crystallographic structure of Panicum Mosaic Virus (PMV).

The crystallographic structure of Panicum Mosaic Virus (PMV).

Abstract：

:The structure of Panicum Mosaic Virus (PMV) was determined by X-ray diffraction analysis to 2.9Å resolution. The crystals were of pseudo symmetry F23; the true crystallographic unit cell was of space group P2(1) with a=411.7Å, b=403.9Å and c=412.5Å, with β=89.7°. The asymmetric unit was two entire T=3 virus particles, or 360 protein subunits. The structure was solved by conventional molecular replacement from two distant homologues, Cocksfoot Mottle Virus (CfMV) and Tobacco Necrosis Virus (TNV), of ∼20% sequence identity followed by phase extension. The model was initially refined with exact icosahedral constraints and then with icosahedral restraints. The virus has Ca(++) ions octahedrally coordinated by six aspartic acid residues on quasi threefold axes, which is completely different than for either CfMV or TNV. Amino terminal residues 1-53, 1-49 and 1-21 of the A, B and C subunits, respectively, and the four C-terminal residues (239-242) are not visible in electron density maps. The additional ordered residues of the C chain form a prominent "arm" that intertwines with symmetry equivalent "arms" at icosahedral threefold axes, as was seen in both CfMV and TNV. A 17 nucleotide hairpin segment of genomic RNA is icosahedrally ordered and bound at 60 equivalent sites at quasi twofold A-B subunit interfaces at the interior surface of the capsid. This segment of RNA may serve as a conformational switch for coat protein subunits, as has been proposed for similar RNA segments in other viruses.

journal_name

J Struct Biol

journal_title

Journal of structural biology

authors

Makino DL,Larson SB,McPherson A

doi

10.1016/j.jsb.2012.10.012

subject

Has Abstract

pub_date

2013-01-01 00:00:00

pages

37-52

issue

1

eissn

1047-8477

issn

1095-8657

pii

S1047-8477(12)00294-8

journal_volume

181

pub_type

杂志文章

相关文献

JOURNAL OF STRUCTURAL BIOLOGY文献大全
  • Nuclear structure and gene activity in human differentiated cells.

    abstract：:The nuclear arrangement of the ABL, c-MYC, and RB1 genes was quantitatively investigated in human undifferentiated HL-60 cells and in a terminally differentiated population of human granulocytes. The ABL gene was expressed in both cell types, the c-MYC gene was active in HL-60 cells and down-regulated in granulocytes,...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/s1047-8477(02)00560-9

    authors： Bártová E,Kozubek S,Jirsová P,Kozubek M,Gajová H,Lukásová E,Skalníková M,Ganová A,Koutná I,Hausmann M

    更新日期：2002-08-01 00:00:00

  • From colloidal nanoparticles to a single crystal: new insights into the formation of nacre's aragonite tablets.

    abstract：:Nacre has long served as a model for understanding the biomineralization mechanism and designing bio-inspired materials. However, its basic building blocks, the aragonite tablets, are still under debate in terms of their fine structure at the nanoscale and corresponding formation mechanism. Here, using a field emissio...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2013.01.010

    authors： Zhang G,Xu J

    更新日期：2013-04-01 00:00:00

  • Multiphase method for automatic alignment of transmission electron microscope images using markers.

    abstract：:In order to successfully perform the 3D reconstruction in electron tomography, transmission electron microscope images must be accurately aligned or registered. So far, the problem is solved by either manually showing the corresponding fiducial markers from the set of images or automatically using simple correlation b...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.2001.4343

    authors： Brandt S,Heikkonen J,Engelhardt P

    更新日期：2001-01-01 00:00:00

  • Structure of cardiac gap junction intercellular channels.

    abstract：:Gap junction proteins, termed connexins, constitute a multigene family of polytopic membrane channel proteins that have four hydrophobic transmembrane domains with the N- and C-termini located on the cytoplasmic membrane face. The principal gap junction protein in the heart, alpha 1 connexin (also designated Cx43), me...

    journal_title：Journal of structural biology

    pub_type： 杂志文章,评审

    doi：10.1006/jsbi.1998.3972

    authors： Yeager M

    更新日期：1998-01-01 00:00:00

  • PEVK extension of human soleus muscle titin revealed by immunolabeling with the anti-titin antibody 9D10.

    abstract：:Titin is a giant protein that spans half of the striated muscle sarcomere. The I-band portion of titin extends as the sarcomere is stretched, developing what is known as passive force. This portion of the molecule is composed mainly of tandem immunoglobulin (Ig) segments, consisting of serially linked Ig-like domains,...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1998.3984

    authors： Trombitás K,Greaser M,French G,Granzier H

    更新日期：1998-01-01 00:00:00

  • Unique three-dimensional structure of a fish pharyngeal jaw subjected to unusually high mechanical loads.

    abstract：:We examine the structure of the bone of the pharyngeal jaws of a large fish, the black drum (Pogonias cromis), that uses its tooth-jaw complex to crush hard-shelled bivalve mollusks. During mastication huge compressive forces are concentrated in a tiny zone at the tooth-bone interface. We report on the structure of th...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2020.107530

    authors： Raguin E,Rechav K,Brumfeld V,Shahar R,Weiner S

    更新日期：2020-08-01 00:00:00

  • Expression, two-dimensional crystallization, and three-dimensional reconstruction of the beta8 outer membrane protein Omp21 from Comamonas acidovorans.

    abstract：:The Omp21 protein from the proteobacterium Comamonas (Delftia) acidovorans belongs to the recently described beta8 family of outer membrane proteins, characterized by eight antiparallel beta-strands which form a beta-barrel. This family includes virulence proteins, OmpA and OmpX from Escherichia coli, and other relate...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.2000.4261

    authors： Baldermann C,Engelhardt H

    更新日期：2000-08-01 00:00:00

  • X-ray vs. NMR structure of N-terminal domain of δ-subunit of RNA polymerase.

    abstract：:The crystal structure of the N-terminal domain of the RNA polymerase δ subunit (Nδ) from Bacillus subtilis solved at a resolution of 2.0Å is compared with the NMR structure determined previously. The molecule crystallizes in the space group C222(1) with a dimer in the asymmetric unit. Importantly, the X-ray structure ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2014.06.001

    authors： Demo G,Papoušková V,Komárek J,Kadeřávek P,Otrusinová O,Srb P,Rabatinová A,Krásný L,Žídek L,Sklenář V,Wimmerová M

    更新日期：2014-08-01 00:00:00

  • Application of isotope exchange based mass spectrometry to understand the mechanism of inhibition of sickle hemoglobin polymerization upon oxygenation.

    abstract：:Sickle hemoglobin (HbS) polymerization initiates in the deoxy state with the binding of hydrophobic patch formed by the isopropyl group of βVal6 residue of a hemoglobin tetramer with the hydrophobic pocket of another tetramer, whose hydrophobic patch binds to the hydrophobic groove of a third molecule. Subsequent elon...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2017.04.009

    authors： Das R,Mitra A,Bhat V,Mandal AK

    更新日期：2017-07-01 00:00:00

  • A first census of collagen interruptions: collagen's own stutters and stammers.

    abstract：:The repetitive Gly-X-Y sequence is the telltale sign of triple helical domains in collagens and collagen-like proteins. Most collagen sequences contain sporadic interruptions of this pattern, which may have functional roles in molecular flexibility, assembly or molecular recognition. However, the structural signatures...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2014.03.022

    authors： Bella J

    更新日期：2014-06-01 00:00:00

  • Isolation and characterization of spermidine nucleoids from Escherichia coli.

    abstract：:Nucleoids isolated from Escherichia coli at low salt concentrations in the presence of spermidine (Kornberg et al., Proc. Natl. Acad. Sci. USA, 71, 3189-3193 (1974)) retain large amounts of protein and RNA and are, thus, potentially useful in structural and other studies. However, these preparations have neither been ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1997.3883

    authors： Murphy LD,Zimmerman SB

    更新日期：1997-08-01 00:00:00

  • Structure of the cytochrome complex SoxXA of Paracoccus pantotrophus, a heme enzyme initiating chemotrophic sulfur oxidation.

    abstract：:The sulfur-oxidizing enzyme system (Sox) of the chemotroph Paracoccus pantotrophus is composed of several proteins, which together oxidize hydrogen sulfide, sulfur, thiosulfate or sulfite and transfers the gained electrons to the respiratory chain. The hetero-dimeric cytochrome c complex SoxXA functions as heme enzyme...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2005.09.002

    authors： Dambe T,Quentmeier A,Rother D,Friedrich C,Scheidig AJ

    更新日期：2005-12-01 00:00:00

  • The unusual extended C-terminal helix of the peroxisomal α/β-hydrolase Lpx1 is involved in dimer contacts but dispensable for dimerization.

    abstract：:The yeast peroxisomal hydrolase Lpx1 belongs to the α/β-hydrolase superfamily. In the absence of Lpx1, yeast peroxisomes show an aberrant vacuolated morphology similar to what is found in peroxisomal disorder patients. Here, we present the crystal structure of Lpx1 determined at a resolution of 1.9 Å. The structure re...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2011.06.008

    authors： Thoms S,Hofhuis J,Thöing C,Gärtner J,Niemann HH

    更新日期：2011-09-01 00:00:00

  • An approach to automated acquisition of cryoEM images from lacey carbon grids.

    abstract：:An approach to automated acquisition of cryoEM image data from lacey carbon grids using the Leginon program is described. Automated liquid nitrogen top up of the specimen holder dewar was used as a step towards full automation, without operator intervention during the course of data collection. During cryoEM studies o...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.08.014

    authors： Nicholson WV,White H,Trinick J

    更新日期：2010-12-01 00:00:00

  • Structure of the Pseudomonas aeruginosa XcpT pseudopilin, a major component of the type II secretion system.

    abstract：:The bacterial type II protein secretion (T2S) and type IV piliation (T4P) systems share several common features. In particular, it is well established that the T2S system requires the function of a pilus-like structure, called pseudopilus, which is built upon assembly of pilin-like subunits, called pseudopilins. Pilin...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2009.09.003

    authors： Alphonse S,Durand E,Douzi B,Waegele B,Darbon H,Filloux A,Voulhoux R,Bernard C

    更新日期：2010-01-01 00:00:00

  • The structural basis of the low catalytic activities of the two minor β-carbonic anhydrases of the filamentous fungus Aspergillus fumigatus.

    abstract：:The β-carbonic anhydrases (β-CAs) are widely distributed zinc-metalloenzymes that play essential roles in growth, survival, development and virulence in fungi. The majority of filamentous ascomycetes possess multiple β-CA isoforms among which major and minor forms have been characterized. We examined the catalytic beh...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2019.07.011

    authors： Kim S,Kim NJ,Hong S,Kim S,Sung J,Jin MS

    更新日期：2019-10-01 00:00:00

  • The paradoxical effects of progesterone on the eggshell quality of laying hens.

    abstract：:This study demonstrates the effects of progesterone on eggshell quality and ultrastructure by injecting progesterone into laying hens 2 and 5 h post-oviposition, respectively. Progesterone injected 2 h post-oviposition (P4-2 h) improved eggshell quality with a significant decrease (P < 0.01) in the thickness of the ma...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2019.107430

    authors： Zhang J,Wang Z,Wang X,Sun L,Rajput SA,Qi D

    更新日期：2020-02-01 00:00:00

  • Dry and survive: morphological changes during anhydrobiosis in a bdelloid rotifer.

    abstract：:Bdelloid rotifers are aquatic microinvertebrates able to cope with the loss of environmental water by entering dormancy, and are thus capable of living in temporary habitats. When water is evaporating, bdelloids contract into "tuns", silence metabolism and lose water from the body, a condition known as anhydrobiosis. ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.04.003

    authors： Marotta R,Leasi F,Uggetti A,Ricci C,Melone G

    更新日期：2010-07-01 00:00:00

  • Gold-tagged RNA-A probe for macromolecular assemblies.

    abstract：:Ribonucleic acids (RNAs) play a key role in many fundamental life processes. These polymers are often found complexed with proteins in extremely large particles whose molecular mass may reach several millions of daltons (e.g., ribosomes, spliceosomes, and viruses). Structural studies of such RNA-protein complexes shou...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1999.4134

    authors： Medalia O,Heim M,Guckenberger R,Sperling R,Sperling J

    更新日期：1999-09-01 00:00:00

  • Zernike phase contrast cryo-electron tomography of sodium-driven flagellar hook-basal bodies from Vibrio alginolyticus.

    abstract：:Vibrio alginolyticus use flagella to swim. A flagellum consists of a filament, hook and basal body. The basal body is made up of a rod and several ring structures. This study investigates the structure of the T ring which is a unique component of the V. alginolyticus sodium ion-driven flagellar basal body. Using Zerni...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.08.004

    authors： Hosogi N,Shigematsu H,Terashima H,Homma M,Nagayama K

    更新日期：2011-01-01 00:00:00

  • NMR and small-angle scattering-based structural analysis of protein complexes in solution.

    abstract：:Structural analysis of multi-domain protein complexes is a key challenge in current biology and a prerequisite for understanding the molecular basis of essential cellular processes. The use of solution techniques is important for characterizing the quaternary arrangements and dynamics of domains and subunits of these ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.11.004

    authors： Madl T,Gabel F,Sattler M

    更新日期：2011-03-01 00:00:00

  • Microstructures of external periosteal callus of repaired femoral fracture in children.

    abstract：:In order to understand further the mechanism of bone fracture repair, and thus to innovate better operative treatment for bone fracture and to design new implant materials for bone repair, microstructures of external periosteal callus (EPC) of repaired femoral fracture in both children and adults were investigated by ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1996.0084

    authors： Cui FZ,Wen HB,Su XW,Zhu XD

    更新日期：1996-11-01 00:00:00

  • Modeling the lateral organization of collagen molecules in fibrils using the paracrystal concept.

    abstract：:A characteristic feature of the dense phases formed by fiber-shaped molecules is their organization into parallel rods packed in a hexagonal or pseudo-hexagonal lateral network. This is typically the case for the collagen triple helices inside fibrils, as confirmed by recent X-ray diffraction experiments carried out o...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2010.11.018

    authors： Doucet J,Briki F,Gourrier A,Pichon C,Gumez L,Bensamoun S,Sadoc JF

    更新日期：2011-02-01 00:00:00

  • A 9 angstroms single particle reconstruction from CCD captured images on a 200 kV electron cryomicroscope.

    abstract：:Sub-nanometer resolution structure determination is becoming a common practice in electron cryomicroscopy of macromolecular assemblies. The data for these studies have until now been collected on photographic film. Using cytoplasmic polyhedrosis virus (CPV), a previously determined structure, as a test specimen, we sh...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2004.02.004

    authors： Booth CR,Jiang W,Baker ML,Zhou ZH,Ludtke SJ,Chiu W

    更新日期：2004-08-01 00:00:00

  • Analysis of immunolabeled cells by atomic force microscopy, optical microscopy, and flow cytometry.

    abstract：:In this study we investigated the applicability of the (silver-enhanced) immunogold labeling method for atomic force microscopy. Human lymphocytes were labeled with anti-CD3 conjugated to fluorescein isothiocyanate and a secondary antibody (goat anti-mouse) linked with 1- or 30-nm colloidal gold particles. Silver enha...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1994.1004

    authors： Neagu C,van der Werf KO,Putman CA,Kraan YM,de Grooth BG,van Hulst NF,Greve J

    更新日期：1994-01-01 00:00:00

  • Molecular events during the early stages of aggregation of GNNQQNY: An all atom MD simulation study of randomly dispersed peptides.

    abstract：:This study probes the early events during lag phase of aggregation of GNNQQNY using all atom MD simulations in explicit solvent. Simulations were performed by varying system size, temperature and starting configuration. Peptides dispersed randomly in the simulation box come together early on in the simulation and form...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2015.09.020

    authors： Srivastava A,Balaji PV

    更新日期：2015-12-01 00:00:00

  • Single-particle tracking of oriC-GFP fluorescent spots during chromosome segregation in Escherichia coli.

    abstract：:DNA regions close to the origin of replication were visualized by the green fluorescent protein (GFP)-Lac repressor/lac operator system. The number of oriC-GFP fluorescent spots per cell and per nucleoid in batch-cultured cells corresponded to the theoretical DNA replication pattern. A similar pattern was observed in ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2005.06.004

    authors： Elmore S,Müller M,Vischer N,Odijk T,Woldringh CL

    更新日期：2005-09-01 00:00:00

  • Actin filament tracking in electron tomograms of negatively stained lamellipodia using the localized radon transform.

    abstract：:The aim of this work was to develop a protocol for automated tracking of actin filaments in electron tomograms of lamellipodia embedded in negative stain. We show that a localized version of the Radon transform for the detection of filament directions enables three-dimensional visualizations of filament network archit...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/j.jsb.2012.02.011

    authors： Winkler C,Vinzenz M,Small JV,Schmeiser C

    更新日期：2012-04-01 00:00:00

  • Use of frozen-hydrated axonemes to assess imaging parameters and resolution limits in cryoelectron tomography.

    abstract：:Using a 400-kV cryoelectron microscope, we have obtained tomographic reconstructions of frozen-hydrated sea urchin axonemes with 8-10-nm resolution, as assessed by detection of characteristic components including doublet microtubules, radial spokes, central sheath projections, and outer dynein arms. We did not detect ...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1016/s1047-8477(02)00020-5

    authors： McEwen BF,Marko M,Hsieh CE,Mannella C

    更新日期：2002-04-01 00:00:00

  • Almost pure I(alpha) cellulose in the cell wall of Glaucocystis.

    abstract：:Crystalline features of cellulose microfibrils in the cell walls of Glaucocystis (Glaucophyta) were studied by combined spectroscopy and diffraction techniques, and the results were compared with those of Oocystis (Chlorophyta). Although these algae are grouped into two different classes, by the composition of their c...

    journal_title：Journal of structural biology

    pub_type： 杂志文章

    doi：10.1006/jsbi.1999.4160

    authors： Imai T,Sugiyama J,Itoh T,Horii F

    更新日期：1999-10-01 00:00:00