| the structure of satellite panicum mosaic virus at 1.9 a resolution. | the crystal structure of satellite panicum mosaic virus (spmv) has been solved by multiple isomorphous replacement and molecular replacement and refined at 1.9 a resolution. spmv, a t = 1 icosahedral virus, is the smallest virus structure determined. the coat protein is an eight-stranded 'jelly roll' beta-barrel with an amino-terminal strand that extends into the interior of the virus, presumably interacting with the rna. regions of electron density on the interior of the protein capsid may be r ... | 1995 | 7552713 |
| the nucleotide sequence of satellite st. augustine decline virus. | the complete nucleotide sequence of the satellite virus of st. augustine decline virus (ssadv) has been determined. it comprises 824 nucleotides and contains a single, large open reading frame that corresponds to the coat protein of the satellite virus, as confirmed by direct amino acid sequencing. the genome contains two other potential open reading frames, similar to the organization of satellite panicum mosaic virus (spmv). these two satellite viruses share significant sequence homology at bo ... | 1994 | 8012048 |
| characterization of crystals of satellite panicum mosaic virus. | satellite panicum mosaic virus (spmv) has been purified from pearl millet and obtained in a variety of different crystal forms, at least two of which appear suitable for high resolution x-ray diffraction analysis. the first is of cubic space group p4(2)32 with a = b = c = 183.1 a and two virus particles in the unit cell. the second is of a primitive orthorhombic space group with a = 166.1 a, b = 266.7 a and c = 269.1 a, with four virus particles in the unit cell. while the cubic crystal has as i ... | 1994 | 8182753 |
| structural comparison of the plant satellite viruses. | detailed structures are now available for three plant satellite viruses, satellite tobacco necrosis virus (stnv), satellite tobacco mosaic virus (stmv), and satellite panicum mosaic virus (spmv). it is, therefore, possible to compare the tertiary structure of viral protein subunits, their quaternary interactions, and the interactions of protein subunits with the rna genome. this analysis indicates that, in spite of common function and preservation of a "jelly-roll" motif in the protein monomer, ... | 1995 | 8553559 |
| in vitro- and in vivo-generated defective rnas of satellite panicum mosaic virus define cis-acting rna elements required for replication and movement. | satellite panicum mosaic virus (spmv) depends on its helper virus, panicum mosaic virus (pmv), to provide trans-acting proteins for replication and movement. the 824-nucleotide (nt) genome of spmv possesses an open reading frame encoding a 17.5-kda capsid protein (cp), which is shown to be dispensable for spmv replication. to localize cis-acting rna elements required for replication and movement, a comprehensive set of spmv cdna deletion mutants was generated. the results showed that the 263-nt ... | 2000 | 10666255 |
| rna: protein interactions associated with satellites of panicum mosaic virus. | the interactions between satellite panicum mosaic virus (spmv) capsid protein (cp) and its 824 nucleotide (nt) single stranded rna were investigated by gel mobility shift assay and northwestern blot assay. spmv cp has specificity for its rna at high affinity, but little affinity for non-viral rna. the spmv cp also bound a 350 nt satellite rna (satrna) that, like spmv, is dependent on panicum mosaic virus for its replication. spmv cp has the novel property of encapsidating spmv rna and satrna. co ... | 2000 | 11086159 |
| genetic identification of multiple biological roles associated with the capsid protein of satellite panicum mosaic virus. | satellite panicum mosaic virus (spmv), an 824-nucleotide, positive-sense, single-stranded rna virus, depends on panicum mosaic virus (pmv) for replication and spread in host plants. compared with pmv infection alone, symptoms are intensified and develop faster on millet plants infected with spmv and pmv. spmv encodes a 157 amino acid capsid protein (cp) (17.5 kda) to encapsidate spmv rna and form t = 1 satellite virions. the present study identifies additional biological activities of the spmv c ... | 2001 | 11194868 |
| defective interfering rnas of a satellite virus. | panicum mosaic virus (pmv) is a recently molecularly characterized rna virus with the unique feature of supporting the replication of two subviral rnas in a few species of the family gramineae. the subviral agents include a satellite rna (satrna) that is devoid of a coding region and the unrelated satellite panicum mosaic virus (spmv) that encodes its own capsid protein. here we report the association of this complex with a new entity in the rna world, a defective-interfering rna (di) of a satel ... | 2001 | 11333930 |
| satellite panicum mosaic virus capsid protein elicits symptoms on a nonhost plant and interferes with a suppressor of virus-induced gene silencing. | the capsid protein (cp) of satellite panicum mosaic virus (spmv) has been implicated as a pathogenicity factor, inducing severe chlorosis on millet plants co-infected with spmv and its helper virus, panicum mosaic virus (pmv). in this study, we tested the effects of spmv cp on nicotiana benthamiana, a plant that does not support pmv+spmv infections. spmv cp expressed from a potato virus x (pvx) gene vector elicited necrotic lesions on n. benthamiana. pathogenicity factors often have the addition ... | 2004 | 15000393 |
| preliminary analysis of crystals of panicum mosaic virus (pmv) by x-ray diffraction and atomic force microscopy. | panicum mosaic virus (pmv), a spherical virus of diameter about 300 a, has been crystallized in a form suitable for high-resolution structural analysis. the crystals were grown from 15% peg 400 at room temperature and could be flash-frozen directly from their mother liquor. the crystals diffracted to beyond 2.7 a resolution. a data set was collected at 100 k to an effective resolution of 3.2 a [weiss (2001), j. appl. cryst. 34, 130-135]. the crystals belonged to space group p2(1), with unit-cell ... | 2005 | 15681868 |
| the capsid protein of satellite panicum mosaic virus contributes to systemic invasion and interacts with its helper virus. | satellite panicum mosaic virus (spmv) depends on its helper panicum mosaic virus (pmv) for replication and spread in host plants. the spmv rna encodes a 17-kda capsid protein (cp) that is essential for formation of its 16-nm virions. the results of this study indicate that in addition to the expression of the full-length spmv cp from the 5'-proximal aug start codon, spmv rna also expresses a 9.4-kda c-terminal protein from the third in-frame start codon. differences in solubility between the ful ... | 2005 | 16014937 |
| investigation of rna structure in satellite panicum mosaic virus. | three new crystal forms of satellite panicum mosaic virus (spmv) were grown and their structures solved from x-ray diffraction data using molecular replacement techniques. the crystals were grown under conditions of ph and ionic strength that were appreciably different then those used for the original structure determination. in rhombohedral crystals grown at ph 8.5 and low ionic strength peg 3350 solutions, fourier syntheses revealed segments, ten amino acid residues long, of amino-terminal pol ... | 2006 | 16677679 |
| a one-step pcr-based method for rapid and efficient site-directed fragment deletion, insertion, and substitution mutagenesis. | a novel primer design method is described for site-directed fragment deletion, insertion, and substitution by pcr that is based on inverse pcr using a single pair of partially complementary primers. this method allowed insertion or substitution of fragments up to 27 bp and deletion of fragments up to 105 bp with screening of candidate colonies complete within 24h. to demonstrate the principle behind this new mutagenesis strategy, a series of deletions, insertions, and substitutions were introduc ... | 2008 | 18314204 |
| multiple activities associated with the capsid protein of satellite panicum mosaic virus are controlled separately by the n- and c-terminal regions. | the 17-kda capsid protein (cp) of satellite panicum mosaic virus (spmv) contains a distinct n-terminal arginine-rich motif (n-arm) which is required for spmv virion assembly and the activity of spmv cp to promote systemic accumulation of its cognate rna. the present study indicates that spmv cp also is involved in spmv rna accumulation in inoculated leaves and that this activity is also dependent on a functional n-arm. in addition, deletions of a c-terminal region abolish virion assembly and imp ... | 2008 | 18393621 |
| the complex subcellular distribution of satellite panicum mosaic virus capsid protein reflects its multifunctional role during infection. | satellite panicum mosaic virus (spmv) depends on its helper panicum mosaic virus for replication and movement in host plants. the positive-sense single-stranded genomic rna of spmv encodes a 17-kda capsid protein (cp) to form 16-nm virions. we determined that spmv cp accumulates in both cytosolic and non-cytosolic fractions, but cytosolic accumulation of spmv cp is exclusively associated with virions. an n-terminal arginine-rich motif (n-arm) on spmv cp is used to bind its cognate rna and to for ... | 2008 | 18440039 |
| analysis of the genome of satellite panicum mosaic virus. | the relatedness of the genomes of satellite panicum mosaic virus (spmv) and its helper virus, panicum mosaic virus (pmv), were investigated by nucleic acid hybridization. the results show that the satellite and helper virus rnas have no appreciable homology or complementarity as assessed by hybridization with cdna probes derived from the genomes of pmv and spmv and with a probe complementary to the 3' terminus of spmv rna. the complete nucleotide sequence of spmv rna reveals that the genome is 8 ... | 1987 | 18644571 |
| translation inhibition of capped and uncapped viral rnas mediated by ribosome-inactivating proteins. | abstract ribosome-inactivating proteins (rips) are n-glycosidases that remove specific purine residues from the sarcin/ricin (s/r) loop of the large rrna and arrest protein synthesis at the translocation step. in addition to their enzymatic activity, rips have been reputed to be potent antiviral agents against many plant, animal, and human viruses. we recently showed that pokeweed antiviral protein (pap), an rip from pokeweed, inhibits translation in cell extracts by binding to the cap structure ... | 2003 | 18942981 |
| satellite panicum mosaic virus coat protein enhances the performance of plant virus gene vectors. | the coat protein of satellite panicum mosaic virus (spcp) is known to effectively protect its cognate rna from deleterious events, and here, we tested its stabilizing potential for heterologous virus-based gene vectors in planta. in support of this, a potato virus x (pvx) vector carrying the spmv capsid protein (pvx-spcp) gene was stable for at least three serial systemic passages through nicotiana benthamiana. to test the effect of spcp in trans, pvx-spcp was co-inoculated onto n. benthamiana t ... | 2010 | 19903565 |
| virtual interface substructure synthesis method for normal mode analysis of super-large molecular complexes at atomic resolution. | normal mode analysis of large biomolecular complexes at atomic resolution remains challenging in computational structure biology due to the requirement of large amount of memory space and central processing unit time. in this paper, we present a method called virtual interface substructure synthesis method or vissm to calculate approximate normal modes of large biomolecular complexes at atomic resolution. vissm introduces the subunit interfaces as independent substructures that join contacting m ... | 2011 | 22010699 |
| complete nucleotide sequences and virion particle association of two satellite rnas of panicum mosaic virus. | over six decades ago, panicum mosaic virus (pmv) was identified as the first viral pathogen of cultivated switchgrass (panicum virgatum). subsequently, pmv was demonstrated to support the replication of both a satellite rna virus (spmv) and satellite rna (satrna) agents during natural infections of host grasses. in this study, we report the isolation and full-length sequences of two pmv satrnas identified in 1988 from st. augustinegrass (stenotaphrum secundatum) and centipedegrass (eremochloa op ... | 2017 | 28673868 |
| nanoindentation of 35 virus capsids in a molecular model: relating mechanical properties to structure. | a coarse-grained model is used to study the mechanical response of 35 virus capsids of symmetries t = 1, t = 2, t = 3, pseudo t = 3, t = 4, and t = 7. the model is based on the native structure of the proteins that constitute the capsids and is described in terms of the c[formula: see text] atoms associated with each amino acid. the number of these atoms ranges between 8 460 (for spmv - satellite panicum mosaic virus) and 135 780 (for nbv - nudaureli virus). nanoindentation by a broad afm tip is ... | 2013 | 23785395 |