3izx Citations

Atomic model of CPV reveals the mechanism used by this single-shelled virus to economically carry out functions conserved in multishelled reoviruses.

Structure 19 652-61 (2011)
Cited: 46 times
EuropePMC logo PMID: 21565700

Abstract

Unlike the multishelled viruses in the Reoviridae, cytoplasmic polyhedrosis virus (CPV) is single shelled, yet stable and fully capable of carrying out functions conserved within Reoviridae. Here, we report a 3.1 Å resolution cryo electron microscopy structure of CPV and derive its atomic model, consisting of 60 turret proteins (TPs), 120 each of capsid shell proteins (CSPs) and large protrusion proteins (LPPs). Two unique segments of CSP contribute to CPV's stability: an inserted protrusion domain interacting with neighboring proteins, and an N-anchor tying up CSPs together through strong interactions such as β sheet augmentation. Without the need to interact with outer shell proteins, LPP retains only the N-terminal two-third region containing a conserved helix-barrel core and interacts exclusively with CSP. TP is also simplified, containing only domains involved in RNA capping. Our results illustrate how CPV proteins have evolved in a coordinative manner to economically carry out their conserved functions.

Articles - 3izx mentioned but not cited (9)

  1. Measurement of atom resolvability in cryo-EM maps with Q-scores. Pintilie G, Zhang K, Su Z, Li S, Schmid MF, Chiu W. Nat Methods 17 328-334 (2020)
  2. Atomic model of CPV reveals the mechanism used by this single-shelled virus to economically carry out functions conserved in multishelled reoviruses. Yu X, Ge P, Jiang J, Atanasov I, Zhou ZH. Structure 19 652-661 (2011)
  3. Detection of spatial correlations in protein structures and molecular complexes. Sippl MJ, Wiederstein M. Structure 20 718-728 (2012)
  4. Data management challenges in three-dimensional EM. Patwardhan A, Carazo JM, Carragher B, Henderson R, Heymann JB, Hill E, Jensen GJ, Lagerstedt I, Lawson CL, Ludtke SJ, Mastronarde D, Moore WJ, Roseman A, Rosenthal P, Sorzano CO, Sanz-García E, Scheres SH, Subramaniam S, Westbrook J, Winn M, Swedlow JR, Kleywegt GJ. Nat Struct Mol Biol 19 1203-1207 (2012)
  5. A newly isolated reovirus has the simplest genomic and structural organization of any reovirus. Auguste AJ, Kaelber JT, Fokam EB, Guzman H, Carrington CV, Erasmus JH, Kamgang B, Popov VL, Jakana J, Liu X, Wood TG, Widen SG, Vasilakis N, Tesh RB, Chiu W, Weaver SC. J Virol 89 676-687 (2015)
  6. Plate tectonics of virus shell assembly and reorganization in phage φ8, a distant relative of mammalian reoviruses. El Omari K, Sutton G, Ravantti JJ, Zhang H, Walter TS, Grimes JM, Bamford DH, Stuart DI, Mancini EJ. Structure 21 1384-1395 (2013)
  7. A cypovirus VP5 displays the RNA chaperone-like activity that destabilizes RNA helices and accelerates strand annealing. Yang J, Cheng Z, Zhang S, Xiong W, Xia H, Qiu Y, Wang Z, Wu F, Qin CF, Yin L, Hu Y, Zhou X. Nucleic Acids Res 42 2538-2554 (2014)
  8. A fragment based method for modeling of protein segments into cryo-EM density maps. Ismer J, Rose AS, Tiemann JKS, Hildebrand PW. BMC Bioinformatics 18 475 (2017)
  9. Viral Phrenology. Wilson DP, Roof DA. Viruses 13 2191 (2021)


Reviews citing this publication (6)

  1. Single-Particle Cryo-EM at Crystallographic Resolution. Cheng Y. Cell 161 450-457 (2015)
  2. Limiting factors in atomic resolution cryo electron microscopy: no simple tricks. Zhang X, Zhou ZH. J Struct Biol 175 253-263 (2011)
  3. Problems in obtaining perfect images by single-particle electron cryomicroscopy of biological structures in amorphous ice. Henderson R, McMullan G. Microscopy (Oxf) 62 43-50 (2013)
  4. Electron Cryo-microscopy as a Tool for Structure-Based Drug Development. Merino F, Raunser S. Angew Chem Int Ed Engl 56 2846-2860 (2017)
  5. Electron Cryomicroscopy of Viruses at Near-Atomic Resolutions. Kaelber JT, Hryc CF, Chiu W. Annu Rev Virol 4 287-308 (2017)
  6. Mechanisms of Cell Entry by dsRNA Viruses: Insights for Efficient Delivery of dsRNA and Tools for Improved RNAi-Based Pest Control. Swevers L, Kontogiannatos D, Kolliopoulou A, Ren F, Feng M, Sun J. Front Physiol 12 749387 (2021)

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  1. High-resolution noise substitution to measure overfitting and validate resolution in 3D structure determination by single particle electron cryomicroscopy. Chen S, McMullan G, Faruqi AR, Murshudov GN, Short JM, Scheres SH, Henderson R. Ultramicroscopy 135 24-35 (2013)
  2. 2.2 Å resolution cryo-EM structure of β-galactosidase in complex with a cell-permeant inhibitor. Bartesaghi A, Merk A, Banerjee S, Matthies D, Wu X, Milne JL, Subramaniam S. Science 348 1147-1151 (2015)
  3. Structure of the E. coli ribosome-EF-Tu complex at <3 Å resolution by Cs-corrected cryo-EM. Fischer N, Neumann P, Konevega AL, Bock LV, Ficner R, Rodnina MV, Stark H. Nature 520 567-570 (2015)
  4. Single particle cryo-electron microscopy and 3-D reconstruction of viruses. Guo F, Jiang W. Methods Mol Biol 1117 401-443 (2014)
  5. In situ structures of the segmented genome and RNA polymerase complex inside a dsRNA virus. Zhang X, Ding K, Yu X, Chang W, Sun J, Zhou ZH. Nature 527 531-534 (2015)
  6. A Fast and Effective Microfluidic Spraying-Plunging Method for High-Resolution Single-Particle Cryo-EM. Feng X, Fu Z, Kaledhonkar S, Jia Y, Shah B, Jin A, Liu Z, Sun M, Chen B, Grassucci RA, Ren Y, Jiang H, Frank J, Lin Q. Structure 25 663-670.e3 (2017)
  7. LipidWrapper: an algorithm for generating large-scale membrane models of arbitrary geometry. Durrant JD, Amaro RE. PLoS Comput Biol 10 e1003720 (2014)
  8. Cryo-EM structure of a transcribing cypovirus. Yang C, Ji G, Liu H, Zhang K, Liu G, Sun F, Zhu P, Cheng L. Proc Natl Acad Sci U S A 109 6118-6123 (2012)
  9. De novo modeling of the F(420)-reducing [NiFe]-hydrogenase from a methanogenic archaeon by cryo-electron microscopy. Mills DJ, Vitt S, Strauss M, Shima S, Vonck J. Elife 2 e00218 (2013)
  10. A putative ATPase mediates RNA transcription and capping in a dsRNA virus. Yu X, Jiang J, Sun J, Zhou ZH. Elife 4 e07901 (2015)
  11. In Situ Structures of the Polymerase Complex and RNA Genome Show How Aquareovirus Transcription Machineries Respond to Uncoating. Ding K, Nguyen L, Zhou ZH. J Virol 92 e00774-18 (2018)
  12. Structural analysis and insertion study reveal the ideal sites for surface displaying foreign peptides on a betanodavirus-like particle. Xie J, Li K, Gao Y, Huang R, Lai Y, Shi Y, Yang S, Zhu G, Zhang Q, He J. Vet Res 47 16 (2016)
  13. TMaCS: a hybrid template matching and classification system for partially-automated particle selection. Zhao J, Brubaker MA, Rubinstein JL. J Struct Biol 181 234-242 (2013)
  14. Intensity-based skeletonization of CryoEM gray-scale images using a true segmentation-free algorithm. Al Nasr K, Liu C, Rwebangira M, Burge L, He J. IEEE/ACM Trans Comput Biol Bioinform 10 1289-1298 (2013)
  15. Genomic and biological characterization of a new cypovirus isolated from Dendrolimus punctatus. Zhou Y, Qin T, Xiao Y, Qin F, Lei C, Sun X. PLoS One 9 e113201 (2014)
  16. Visualization and quality assessment of the contrast transfer function estimation. Sheth LK, Piotrowski AL, Voss NR. J Struct Biol 192 222-234 (2015)
  17. Atomic Structure of the Trichomonas vaginalis Double-Stranded RNA Virus 2. Stevens A, Muratore K, Cui Y, Johnson PJ, Zhou ZH. mBio 12 e02924-20 (2021)
  18. Letter Cypovirus capsid protein VP5 has nucleoside triphosphatase activity. Yang J, Qian Q, Li TF, Yang X, Won SJ, Zhou X. Virol Sin 32 328-330 (2017)
  19. Multiple conformations of trimeric spikes visualized on a non-enveloped virus. Zhang Y, Cui Y, Sun J, Zhou ZH. Nat Commun 13 550 (2022)
  20. Interactions among Dendrolimus punctatus cypovirus proteins and identification of the genomic segment encoding its A-spike. Cheng C, Shao Y, Su L, Zhou Y, Sun X. J Gen Virol 95 1532-1538 (2014)
  21. Molecular detection and genomic characterization of Torque teno canis virus in domestic dogs in Guangxi Province, China. Sun W, Xie C, Liang C, Zheng M, Zhao G, Zhang P, Han J, Jing J, Wen S, Xiao P, Cui Z, Zhang J, Ren J, Liu H, Lu H, Jin N. J Biotechnol 252 50-54 (2017)
  22. Molecular characterization of protein p50 of Dendrolimus punctatus cytoplasmic polyhedrosis virus. Jin L, Dai C, Qin T, Sun X. J Basic Microbiol 53 37-44 (2013)
  23. Three-dimensional reconstruction of icosahedral particles from single micrographs in real time at the microscope. Cardone G, Yan X, Sinkovits RS, Tang J, Baker TS. J Struct Biol 183 329-341 (2013)
  24. Seeing engineered loops in a gene delivery vehicle by cryoEM. Zhou ZH. Structure 20 1286-1288 (2012)
  25. The structure of a 12-segmented dsRNA reovirus: New insights into capsid stabilization and organization. Zhang Q, Gao Y, Baker ML, Liu S, Jia X, Xu H, He J, Kaelber JT, Weng S, Jiang W. PLoS Pathog 19 e1011341 (2023)
  26. Transcriptional response of immune-related genes after endogenous expression of VP1 and exogenous exposure to VP1-based VLPs and CPV virions in lepidopteran cell lines. Zhao Y, Kolliopoulou A, Ren F, Lu Q, Labropoulou V, Swevers L, Sun J. Mol Genet Genomics 294 887-899 (2019)
  27. Editorial Exploring the inside details of virions by electron microscopy. Liu Z, Zhang J. Biophys Rep 2 21-24 (2016)
  28. MTase Domain of Dendrolimus punctatus cypovirus VP3 Mediates Virion Attachment and Interacts with Host ALP Protein. Su L, Xu C, Cheng C, Lei C, Sun X. Viruses 9 E66 (2017)
  29. Asymmetric reconstruction of the aquareovirus core at near-atomic resolution and mechanism of transcription initiation. Stevens A, Cui Y, Shivakoti S, Zhou ZH. Protein Cell 14 544-548 (2023)
  30. Cryo-EM structures of Banna virus in multiple states reveal stepwise detachment of viral spikes. Li Z, Xia H, Rao G, Fu Y, Chong T, Tian K, Yuan Z, Cao S. Nat Commun 15 2284 (2024)
  31. Integration of Cypoviruses into polyhedrin matrix. Konevtsova OV, Golushko IY, Podgornik R, Rochal SB. Nanoscale Adv 5 4140-4148 (2023)