<?xml version="1.0" encoding="UTF-8"?>
<emd emdb_id="EMD-27232" version="3.0.3.0">
    <admin>
        <current_status>
            <date>2023-04-12</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2022-06-07</deposition>
            <header_release>2023-02-15</header_release>
            <map_release>2023-02-15</map_release>
            <update>2023-04-12</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)</funding_body>
                <code>1ZIAAI001180</code>
                <country>United States</country>
            </grant_reference>
        </grant_support>
        <title>Subtomogram of Fluad vaccine hemagglutinin spiked nanodisc</title>
        <authors_list>
            <author ORCID="0000-0002-1954-8872">Gallagher JR</author>
            <author ORCID="0000-0002-1954-8872">Audray AK</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Myers ML</author>
                    <author ORCID="0000-0002-1954-8872" order="2">Gallagher JR</author>
                    <author order="3">Kim AJ</author>
                    <author order="4">Payne WH</author>
                    <author order="5">Maldonado-Puga S</author>
                    <author order="6">Assimakopoulos H</author>
                    <author ORCID="0000-0001-9454-0937" order="7">Bock KW</author>
                    <author order="8">Torian U</author>
                    <author order="9">Moore IN</author>
                    <author ORCID="0000-0002-8875-1874" order="10">Harris AK</author>
                    <title>Commercial influenza vaccines vary in HA-complex structure and in induction of cross-reactive HA antibodies.</title>
                    <journal_abbreviation>Nat Commun</journal_abbreviation>
                    <country>UK</country>
                    <volume>14</volume>
                    <first_page>1763</first_page>
                    <last_page>1763</last_page>
                    <year>2023</year>
                    <external_references type="PUBMED">36997521</external_references>
                    <external_references type="DOI">doi:10.1038/s41467-023-37162-z</external_references>
                    <external_references type="ISSN">2041-1723</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-27232</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-27233</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Hemagglutinin protein extracted from these influenza viruses:
A/Singapore/GP1908/2015
A/Singapore/INFIMH-16-0019/2016
B/Maryland/15/2016</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1" chimera="true">
                <name>Hemagglutinin protein extracted from these influenza viruses:
A/Singapore/GP1908/2015
A/Singapore/INFIMH-16-0019/2016
B/Maryland/15/2016</name>
                <parent>0</parent>
                <details>formulated in MF59C.1 adjuvant</details>
                <natural_source database="NCBI">
                    <organism ncbi="11320">Influenza A virus</organism>
                </natural_source>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="2" chimera="true">
                <name>A/Singapore/INFIMH-16-0019/2016 hemagglutinin protein</name>
                <parent>1</parent>
                <details>formulated in MF59C.1 adjuvant</details>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="3" chimera="true">
                <name>A/Singapore/GP1908/2015 hemagglutinin protein</name>
                <parent>1</parent>
                <details>formulated with MF59C.1 adjuvant</details>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="4" chimera="true">
                <name>B/Maryland/15/2016 hemagglutinin protein</name>
                <parent>1</parent>
                <details>formulated with MF59C.1 adjuvant</details>
            </complex_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>tomography</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <tomography_preparation preparation_id="1">
                    <buffer>
                        <ph>7.4</ph>
                    </buffer>
                    <grid>
                        <model>C-flat-2/2</model>
                        <material>COPPER</material>
                        <mesh>200</mesh>
                        <support_film film_type_id="1">
                            <film_material>CARBON</film_material>
                            <film_topology>HOLEY</film_topology>
                        </support_film>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">310</chamber_temperature>
                        <instrument>LEICA EM GP</instrument>
                    </vitrification>
                    <fiducial_markers_list>
                        <fiducial_marker>
                            <manufacturer>Electron Microscopy Sciences</manufacturer>
                            <diameter units="nanometer">10</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>FEI TITAN KRIOS</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_defocus_min units="µm">0.2</nominal_defocus_min>
                    <nominal_defocus_max units="µm">0.5</nominal_defocus_max>
                    <specialist_optics>
                        <phase_plate>VOLTA PHASE PLATE</phase_plate>
                        <energy_filter>
                            <slit_width units="eV">20</slit_width>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>FEI FALCON III (4k x 4k)</film_or_detector_model>
                            <average_electron_dose_per_image units="e/Å^2">1.64</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>
                    <software_list>
                        <software>
                            <name>IMOD</name>
                        </software>
                    </software_list>
                    <number_images_used>61</number_images_used>
                </final_reconstruction>
            </tomography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="26275">
        <file>emd_27232.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS SIGNED BYTE</data_type>
        <dimensions>
            <col>301</col>
            <row>301</row>
            <sec>290</sec>
        </dimensions>
        <origin>
            <col>-1333</col>
            <row>-1445</row>
            <sec>145</sec>
        </origin>
        <spacing>
            <x>301</x>
            <y>301</y>
            <z>290</z>
        </spacing>
        <cell>
            <a units="Å">1386.3157</a>
            <b units="Å">1386.3157</b>
            <c units="Å">1335.653</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>-37.0</minimum>
            <maximum>60.0</maximum>
            <average>15.814323</average>
            <std>4.906499</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">4.6057</x>
            <y units="Å">4.6057</y>
            <z units="Å">4.6057</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-27232::::</label>
        <annotation_details>subtomogram of Fluad nanodisc, raw</annotation_details>
    </map>
    <interpretation>
        <additional_map_list>
            <additional_map format="CCP4" size_kbytes="26275">
                <file>emd_27232_additional_1.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS SIGNED BYTE</data_type>
                <dimensions>
                    <col>301</col>
                    <row>301</row>
                    <sec>290</sec>
                </dimensions>
                <origin>
                    <col>-1333</col>
                    <row>-1445</row>
                    <sec>145</sec>
                </origin>
                <spacing>
                    <x>301</x>
                    <y>301</y>
                    <z>290</z>
                </spacing>
                <cell>
                    <a units="Å">1386.3157</a>
                    <b units="Å">1386.3157</b>
                    <c units="Å">1335.653</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>-34.0</minimum>
                    <maximum>11.0</maximum>
                    <average>-15.308872</average>
                    <std>1.2090646</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">4.6057</x>
                    <y units="Å">4.6057</y>
                    <z units="Å">4.6057</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-27232::::</label>
                <annotation_details>subtomogram of Fluad nanodisc, processed with nonlinear anisotropic diffusion.</annotation_details>
            </additional_map>
        </additional_map_list>
    </interpretation>
</emd>
