Structural Comparisons of Empty and Full Cytoplasmic Polyhedrosis Virus

Xia, Qing; Jakana, Joanita; Zhang, Jingqiang; Zhou, Z.H.

doi:10.1074/jbc.m205964200

Cited by 35 publications

(14 citation statements)

References 37 publications

(37 reference statements)

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“…4a, Supplementary Video 1). In most regions, these rods form parallel striations with an inter-rod distance of ~27Å as suggested early (e.g., 10,11). Some of the rods exhibit the characteristic minor and major grooves typical of dsRNA duplex (Fig.…”

supporting

confidence: 54%

In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus

Zhang

Ding

et al. 2015

Nature

111

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Summary Viruses in the Reoviridae, like the triple-shelled human rotavirus and the single-shelled insect cytoplasmic polyhedrosis virus (CPV), all package a genome of segmented dsRNAs inside the viral capsid and carry out endogenous mRNA synthesis through a transcriptional enzyme complex (TEC). By direct electron-counting cryoEM and asymmetric reconstruction, we have determined the organization of the dsRNA genome inside quiescent CPV (q-CPV) and the in situ atomic structures of TEC within CPV in both quiescent and transcribing (t-CPV) states. We show that the total 10 segmented dsRNAs in CPV are organized with 10 TECs in a specific, non-symmetric manner, with each dsRNA segment attached directly to a TEC. TEC consists of two extensively-interacting subunits: an RNA-dependent RNA polymerase (RdRP) and an NTPase VP4. We find that the bracelet domain of RdRP undergoes significant conformational change when converted from q-CPV to t-CPV, leading to formation of the RNA template entry channel and access to the polymerase active site. An N-terminal helix from each of two subunits of the capsid shell protein (CSP) interacts with VP4 and RdRP. These findings establish the link between sensing of environmental cues by the external proteins and activation of endogenous RNA transcription by the TEC inside the virus.

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supporting

confidence: 54%

In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus

Zhang

Ding

et al. 2015

Nature

111

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“…The first possibility involves helix formation prior to complexation, whereas the second would involve independent complexation of two strands in close proximity, followed by local helix formation. It is interesting to note that dodecahedral RNA structures have also been found in ds-RNA viruses, 37,38 which would suggest helix formation prior to complexation. We will leave this interesting and complex question for future work, choosing to address the more basic question of the role of sequence-independent electrostatic effects.…”

Section: Introductionmentioning

confidence: 99%

Electrostatics of capsid-induced viral RNA organization

Forrey

Muthukumar

2009

The Journal of Chemical Physics

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We have addressed the role of electrostatics in the formation of genome structure in the Pariacoto virus, where substantial experimental data are available. We have used Langevin dynamics simulation of a coarse-grained model, based on the published crystal structure of the rigid portion of the Pariacoto capsid and including flexible N-terminal protein arms, attached to the rigid capsid at the appropriate locations. The inclusion of charged residues in our model was dictated solely by the location of charges inherent in the Pariacoto sequence itself. Although the viral genome and other exogenous RNA sequences used in experimental studies can assume secondary structures, we have intentionally used uniformly charged flexible polyelectrolyte lacking predetermined secondary structures as the substitute for the viral genome, in order to see whether the same final assembled genome structure emerges without invoking secondary RNA structures. The intent of our study was to investigate the internal environment presented by the capsid proteins of Pariacoto virus, specifically whether the topological features and electrostatic potential at the inner capsid surface can induce complexation of generic negatively charged polyelectrolyte into structures similar to those observed experimentally with packaged RNA. We find that the charge decoration on the interior of the capsid templates the assembly of the flexible polyelectrolyte, allowing hybridizationlike folding of similarly charged strands, and eventually organizing dodecahedral assembly of the polymer. Our results from a generic flexible polyelectrolyte for the assembled structure and bimodal monomer distribution are remarkably matched to that of the viral RNA found experimentally. Results of our work can be interpreted primarily as a consequence of electrostatics, as consideration of base-pairing has been omitted. We propose that our work supports the growing body of evidence that electrostatic interactions play a crucial role in RNA viral assembly and structure.

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“…The three-dimensional structure of CPV particles has been determined by using cryoelectron microscopy. The current structure is reported at a resolution of 8 Å , which is up from 13 and 25 Å (Zhang et al, 1999;Nibert & Baker, 2003;Xia et al, 2003;Zhou et al, 2003). Another 25 Å cryoelectron microscopy reconstruction of a CPV is also reported (Hill et al, 1999).…”

Section: Introductionmentioning

confidence: 85%

Identification and genome characterization of Heliothis armigera cypovirus types 5 and 14 and Heliothis assulta cypovirus type 14

Tan

et al. 2006

Journal of General Virology

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Genomic characterization of Heliothis armigera cypovirus (HaCPV) isolated from China showed that insects were co-infected with several cypoviruses (CPVs). One of the CPVs (HaCPV-5) could be separated from the others by changing the rearing conditions of the Heliothis armigera larvae. This finding was further confirmed by nucleotide sequencing analysis. Genomic sequences of segments S10-S7 from HaCPV-14, S10 and S7 from HaCPV-5, and S10 from Heliothis assulta CPV-14 were compared. Results from database searches showed that the nucleotide sequences and deduced amino acid sequences of the newly identified CPVs had high levels of identity with those of reported CPVs of the same type, but not with CPVs of different types. Putative amino acid sequences of HaCPV-5 S7 were similar to that of the protein from Rice ragged stunt virus (genus Oryzavirus, family Reoviridae), suggesting that CPVs and oryzaviruses are related more closely than other genera of the family Reoviridae. Conserved motifs were also identified at the ends of each RNA segment of the same virus type: type 14, 59-AGAAUUU...CAGCU-39; and type 5, 59-AGUU...UUGC-39. Our results are consistent with classification of CPV types based on the electrophoretic patterns of CPV double-stranded RNA.

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Structural Comparisons of Empty and Full Cytoplasmic Polyhedrosis Virus

Cited by 35 publications

References 37 publications

In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus

In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus

Electrostatics of capsid-induced viral RNA organization

Identification and genome characterization of Heliothis armigera cypovirus types 5 and 14 and Heliothis assulta cypovirus type 14

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