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<emd emdb_id="EMD-11222" version="3.0.2.8">
    <admin>
        <current_status>
            <date>2022-12-21</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2020-06-24</deposition>
            <header_release>2021-03-17</header_release>
            <map_release>2021-03-17</map_release>
            <update>2022-12-21</update>
        </key_dates>
        <title>Structure of SARS-CoV-2 spike glycoprotein (S) trimer determined by sub-tomogram averaging</title>
        <authors_list>
            <author>Turonova B</author>
            <author>Sikora M</author>
            <author>Schurmann C</author>
            <author>Hagen W</author>
            <author>Welsch S</author>
            <author>Blanc FEC</author>
            <author>von Bulow S</author>
            <author>Gecht M</author>
            <author>Bagola K</author>
            <author>Horner C</author>
            <author>van Zandbergen G</author>
            <author>Landry J</author>
            <author>de Azevedo NTD</author>
            <author>Mosalaganti S</author>
            <author>Schwarz A</author>
            <author>Covino R</author>
            <author>Muhlebach M</author>
            <author>Hummer G</author>
            <author>Locker JK</author>
            <author>Beck M</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author ORCID="0000-0002-5457-4478" order="1">Turonova B</author>
                    <author ORCID="0000-0003-1691-4045" order="2">Sikora M</author>
                    <author ORCID="0000-0003-1530-1378" order="3">Schurmann C</author>
                    <author ORCID="0000-0001-6229-2692" order="4">Hagen WJH</author>
                    <author ORCID="0000-0002-6049-6664" order="5">Welsch S</author>
                    <author ORCID="0000-0002-0762-0478" order="6">Blanc FEC</author>
                    <author order="7">von Bulow S</author>
                    <author ORCID="0000-0002-4643-6593" order="8">Gecht M</author>
                    <author order="9">Bagola K</author>
                    <author ORCID="0000-0002-9653-1249" order="10">Horner C</author>
                    <author order="11">van Zandbergen G</author>
                    <author order="12">Landry J</author>
                    <author order="13">de Azevedo NTD</author>
                    <author ORCID="0000-0002-5934-687X" order="14">Mosalaganti S</author>
                    <author ORCID="0000-0003-0827-4957" order="15">Schwarz A</author>
                    <author ORCID="0000-0003-0884-0402" order="16">Covino R</author>
                    <author ORCID="0000-0002-7069-5018" order="17">Muhlebach M</author>
                    <author ORCID="0000-0001-7768-746X" order="18">Hummer G</author>
                    <author ORCID="0000-0001-8658-2977" order="19">Locker JK</author>
                    <author ORCID="0000-0002-7397-1321" order="20">Beck M</author>
                    <title>Structure of SARS-CoV-2 spike glycoprotein (S) trimer in closed state determined by sub-tomogram averaging</title>
                    <journal_abbreviation>Science</journal_abbreviation>
                    <country>US</country>
                    <volume>370</volume>
                    <first_page>203</first_page>
                    <last_page>208</last_page>
                    <year>2020</year>
                    <external_references type="PUBMED">32817270</external_references>
                    <external_references type="DOI">doi:10.1126/science.abd5223</external_references>
                    <external_references type="ISSN">6513</external_references>
                    <external_references type="CSD">0038</external_references>
                    <external_references type="ASTM">SCIEAS</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-11222</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Severe acute respiratory syndrome coronavirus 2</name>
        <supramolecule_list>
            <virus_supramolecule supramolecule_id="1">
                <name>Severe acute respiratory syndrome coronavirus 2</name>
                <parent>0</parent>
                <sci_species_name ncbi="2697049">Severe acute respiratory syndrome coronavirus 2</sci_species_name>
                <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>subtomogramAveraging</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <subtomogram_averaging_preparation preparation_id="1">
                    <buffer>
                        <ph>7.4</ph>
                        <component>
                            <formula>PBS</formula>
                            <name>Phosphate buffered Saline</name>
                        </component>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/2</model>
                        <material>COPPER</material>
                        <mesh>200</mesh>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                        </pretreatment>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">279</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                    </vitrification>
                </subtomogram_averaging_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <subtomogram_averaging_microscopy microscopy_id="1">
                    <microscope>FEI TITAN KRIOS</microscope>
                    <illumination_mode>OTHER</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">300</acceleration_voltage>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K3 BIOQUANTUM (6k x 4k)</film_or_detector_model>
                            <average_electron_dose_per_image units="e/Å^2">3.5</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </subtomogram_averaging_microscopy>
            </microscopy_list>
            <subtomogram_averaging_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
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                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <resolution units="Å" res_type="BY AUTHOR">7.9</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <number_subtomograms_used>8273</number_subtomograms_used>
                </final_reconstruction>
                <extraction>
                    <number_tomograms>266</number_tomograms>
                    <number_images_used>2150597</number_images_used>
                    <reference_model>De Novo</reference_model>
                </extraction>
                <final_angle_assignment>
                    <type>NOT APPLICABLE</type>
                    <software_list>
                        <software>
                            <name>novaSTA</name>
                        </software>
                    </software_list>
                </final_angle_assignment>
            </subtomogram_averaging_processing>
        </structure_determination>
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        <annotation_details>Structure of the SARS-CoV-2 S glycoprotein trimer</annotation_details>
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    <interpretation>
        <modelling_list>
            <modelling>
                <initial_model>
                    <access_code>6VXX</access_code>
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                <initial_model>
                    <access_code>6VXX</access_code>
                    <chain>
                        <chain_id>B</chain_id>
                    </chain>
                </initial_model>
                <initial_model>
                    <access_code>6VXX</access_code>
                    <chain>
                        <chain_id>C</chain_id>
                    </chain>
                </initial_model>
                <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            </modelling>
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                    <medium>Y</medium>
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                <label>::::EMDATABANK.org::::EMD-11222::::</label>
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            </half_map>
        </half_map_list>
    </interpretation>
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