+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-8360 | |||||||||
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Title | Asymmetric reconstruction of bacteriophage MS2 | |||||||||
Map data | Symmetry-free cryo-EM reconstruction of MS2 coliphage. | |||||||||
Sample |
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Biological species | Bacteriophage MS2 (virus) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 10.5 Å | |||||||||
Authors | Nazarov SU / Guerrero-Ferreira RC / Zhong Q / Kohn T / Leiman PG | |||||||||
Citation | Journal: Environ Sci Technol / Year: 2016 Title: Genetic, Structural, and Phenotypic Properties of MS2 Coliphage with Resistance to ClO Disinfection. Authors: Qingxia Zhong / Anna Carratalà / Sergey Nazarov / Ricardo Cesar Guerrero-Ferreira / Laura Piccinini / Virginie Bachmann / Petr G Leiman / Tamar Kohn / Abstract: Common water disinfectants like chlorine have been reported to select for resistant viruses, yet little attention has been devoted to characterizing disinfection resistance. Here, we investigated the ...Common water disinfectants like chlorine have been reported to select for resistant viruses, yet little attention has been devoted to characterizing disinfection resistance. Here, we investigated the resistance of MS2 coliphage to inactivation by chlorine dioxide (ClO). ClO inactivates MS2 by degrading its structural proteins, thereby disrupting the ability of MS2 to attach to and infect its host. ClO-resistant virus populations emerged not only after repeated cycles of ClO disinfection followed by regrowth but also after dilution-regrowth cycles in the absence of ClO. The resistant populations exhibited several fixed mutations which caused the substitution of ClO-labile by ClO-stable amino acids. On a phenotypic level, these mutations resulted in a more stable host binding during inactivation compared to the wild-type, thus resulting in a greater ability to maintain infectivity. This conclusion was supported by cryo-electron microscopy reconstruction of the virus particle, which demonstrated that most structural modification occurred in the putative A protein, an important binding factor. Resistance was specific to the inactivation mechanism of ClO and did not result in significant cross-resistance to genome-damaging disinfectants. Overall, our data indicate that resistant viruses may emerge even in the absence of ClO pressure but that they can be inactivated by other common disinfectants. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_8360.map.gz | 55.6 MB | EMDB map data format | |
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Header (meta data) | emd-8360-v30.xml emd-8360.xml | 10.1 KB 10.1 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_8360_fsc.xml | 8.8 KB | Display | FSC data file |
Images | emd_8360.png | 296 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-8360 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-8360 | HTTPS FTP |
-Related structure data
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_8360.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Symmetry-free cryo-EM reconstruction of MS2 coliphage. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.37 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : Bacteriophage MS2
Entire | Name: Bacteriophage MS2 (virus) |
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Components |
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-Supramolecule #1: Bacteriophage MS2
Supramolecule | Name: Bacteriophage MS2 / type: virus / ID: 1 / Parent: 0 / Macromolecule list: #1 Details: Bacteriophage MS2 (DSMZ 13767) and its Escherichia coli host (DSMZ 5695) were obtained from the German Collection of Microorganisms and Cell Cultures (DSMZ, Braunschweig, Germany). NCBI-ID: 12022 / Sci species name: Bacteriophage MS2 / Virus type: VIRION / Virus isolate: STRAIN / Virus enveloped: No / Virus empty: No |
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Virus shell | Shell ID: 1 / T number (triangulation number): 3 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 |
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Grid | Model: Quantifoil / Mesh: 300 |
Vitrification | Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV |
-Electron microscopy
Microscope | FEI TECNAI F20 |
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Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Cs: 2.0 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 0.8 µm |
Sample stage | Specimen holder model: GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER Cooling holder cryogen: NITROGEN |
Image recording | Film or detector model: FEI EAGLE (4k x 4k) / Number real images: 1298 / Average electron dose: 25.0 e/Å2 |
Experimental equipment | Model: Tecnai F20 / Image courtesy: FEI Company |