<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="https://ftp.ebi.ac.uk/pub/databases/em_ebi/emdb_related/emdb-schemas/emdb_schemas/v3/v3_0_9_0/emdb.xsd" version="3.0.9.0" emdb_id="EMD-13228">
    <admin>
        <current_status>
            <date>2023-10-25</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2021-07-16</deposition>
            <header_release>2022-10-12</header_release>
            <map_release>2022-10-12</map_release>
            <update>2023-10-25</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Medical Research Council (MRC, United Kingdom)</funding_body>
                <code>MR/N013166/1</code>
                <country>United Kingdom</country>
            </grant_reference>
            <grant_reference>
                <funding_body>Medical Research Council (MRC, United Kingdom)</funding_body>
                <code>MC_UU_12014/9</code>
                <country>United Kingdom</country>
            </grant_reference>
            <grant_reference>
                <funding_body>Medical Research Council (MRC, United Kingdom)</funding_body>
                <code>MC_UU_12014/7</code>
                <country>United Kingdom</country>
            </grant_reference>
        </grant_support>
        <title>Cryo-electron tomogram of a hybrid virus particle generated by coinfection of human Influenza A virus and Respiratory Syncytial virus on lung cells.</title>
        <authors_list>
            <author>Vijayakrishnan S</author>
            <author>Haney J</author>
            <author>Murcia PR</author>
        </authors_list>
        <keywords>hybrid virus, filament, glycoprotein spikes, RNPs, VIRUS</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author ORCID="0000-0001-9635-8207" order="1">Haney J</author>
                    <author order="2">Vijayakrishnan S</author>
                    <author ORCID="0000-0001-7808-605X" order="3">Streetley J</author>
                    <author order="4">Dee K</author>
                    <author ORCID="0000-0001-6014-387X" order="5">Goldfarb DM</author>
                    <author order="6">Clarke M</author>
                    <author order="7">Mullin M</author>
                    <author order="8">Carter SD</author>
                    <author ORCID="0000-0003-2096-8310" order="9">Bhella D</author>
                    <author ORCID="0000-0002-4352-394X" order="10">Murcia PR</author>
                    <title>Coinfection by influenza A virus and respiratory syncytial virus produces hybrid virus particles.</title>
                    <journal_abbreviation>Nat Microbiol</journal_abbreviation>
                    <country>UK</country>
                    <volume>7</volume>
                    <first_page>1879</first_page>
                    <last_page>1890</last_page>
                    <year>2022</year>
                    <external_references type="PUBMED">36280786</external_references>
                    <external_references type="DOI">doi:10.1038/s41564-022-01242-5</external_references>
                    <external_references type="ISSN">2058-5276</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Hybrid virus particle formed from RSV A2 and IAV PR8</name>
        <supramolecule_list>
            <virus_supramolecule supramolecule_id="1">
                <name>Hybrid virus particle formed from RSV A2 and IAV PR8</name>
                <parent>0</parent>
                <details>This sample was A549 lung fibroblasts coinfected with both the PR8 strain of Influenza A virus and the A2 strain of Respiratory Syncytial Virus.</details>
                <sci_species_name ncbi="1972429">Hybrid virus particle formed from RSV A2 and IAV PR8</sci_species_name>
                <sci_species_strain>A2 and PR8</sci_species_strain>
                <natural_host database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <strain>PR8 and A2</strain>
                </natural_host>
                <virus_type>VIRION</virus_type>
                <virus_isolate>STRAIN</virus_isolate>
                <virus_enveloped>true</virus_enveloped>
                <virus_empty>false</virus_empty>
            </virus_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>tomography</method>
            <aggregation_state>cell</aggregation_state>
            <specimen_preparation_list>
                <tomography_preparation preparation_id="1">
                    <buffer>
                        <ph>7.5</ph>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/2</model>
                        <material>GOLD</material>
                        <mesh>200</mesh>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">95</chamber_humidity>
                        <chamber_temperature units="K">277</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <details>Blotted from backside for 5 seconds before plunging.. </details>
                    </vitrification>
                    <details>This sample was A549 lung fibroblasts coinfected with the human PR8 strain of Influenza A virus and A2 strain of Respiratory Syncytial virus directly on EM grids.</details>
                    <fiducial_markers_list>
                        <fiducial_marker>
                            <manufacturer>British Biocell International</manufacturer>
                            <diameter units="nanometer">20</diameter>
                        </fiducial_marker>
                    </fiducial_markers_list>
                    <sectioning>
                        <other_sectioning>NO SECTIONING</other_sectioning>
                    </sectioning>
                </tomography_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <tomography_microscopy microscopy_id="1">
                    <microscope>JEOL CRYO ARM 300</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">300</acceleration_voltage>
                    <nominal_cs units="mm">2.7</nominal_cs>
                    <nominal_defocus_min units="µm">1.0</nominal_defocus_min>
                    <nominal_defocus_max units="µm">2.0</nominal_defocus_max>
                    <nominal_magnification>50000.0</nominal_magnification>
                    <specimen_holder_model>JEOL CRYOSPECPORTER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <specialist_optics>
                        <energy_filter>
                            <name>In-column Omega Filter</name>
                            <slit_width units="eV">30</slit_width>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>DIRECT ELECTRON DE-64 (8k x 8k)</film_or_detector_model>
                            <detector_mode>COUNTING</detector_mode>
                            <average_electron_dose_per_image units="e/Å^2">1.6</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </tomography_microscopy>
            </microscopy_list>
            <tomography_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <final_reconstruction>
                    <algorithm>BACK PROJECTION</algorithm>
                    <software_list>
                        <software>
                            <name>IMOD</name>
                            <version>4.11</version>
                            <processing_details>Tomograms reconstructed using Etomo module of IMOD</processing_details>
                        </software>
                    </software_list>
                    <details>Tilt series were aligned and dose filtered using alignframes module in IMOD; tomograms were reconstructed using weighted back projection via the etomo module in IMOD. CTF correction was carried out using ctfplotter. Final tomograms were binned by 8 (bin8) to aid in visualisation and interpretation.</details>
                    <number_images_used>61</number_images_used>
                </final_reconstruction>
            </tomography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="679478">
        <file>emd_13228.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>1024</col>
            <row>1024</row>
            <sec>162</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>81</sec>
        </origin>
        <spacing>
            <x>1024</x>
            <y>1024</y>
            <z>162</z>
        </spacing>
        <cell>
            <a units="Å">12279.808</a>
            <b units="Å">12279.808</b>
            <c units="Å">1942.704</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">90.0</gamma>
        </cell>
        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-6986.620600000000195</minimum>
            <maximum>6655.004399999999805</maximum>
            <average>17.468132000000001</average>
            <std>175.44765000000001</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">11.992</x>
            <y units="Å">11.992</y>
            <z units="Å">11.992</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-13228::::</label>
        <annotation_details>Cryo-electron tomogram of a hybrid virus particle generated during coinfection of Influenza A virus and Respiratory Syncytial virus in lung cells.</annotation_details>
    </map>
</emd>
