<?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_11_0/emdb.xsd" version="3.0.11.0" emdb_id="EMD-54016">
    <admin>
        <current_status>
            <date>2026-03-11</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <revision_history>
            <revision version="1.0" date="2026-03-11">
                <change_list>
                    <metadata>
                        <revision_type>INITIAL_RELEASE</revision_type>
                        <provider>REPOSITORY</provider>
                    </metadata>
                    <image>
                        <revision_type>INITIAL_RELEASE</revision_type>
                        <provider>REPOSITORY</provider>
                    </image>
                    <primary_map>
                        <revision_type>INITIAL_RELEASE</revision_type>
                        <provider>REPOSITORY</provider>
                    </primary_map>
                </change_list>
            </revision>
        </revision_history>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2025-06-14</deposition>
            <header_release>2026-03-11</header_release>
            <map_release>2026-03-11</map_release>
            <update>2026-03-11</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Agence Nationale de la Recherche (ANR)</funding_body>
                <code>ANR-23-CE12-0019-01</code>
                <country>France</country>
            </grant_reference>
            <grant_reference>
                <funding_body>ATIP-Avenir</funding_body>
                <country>France</country>
            </grant_reference>
            <grant_reference>
                <funding_body>German Research Foundation (DFG)</funding_body>
                <code>INST 152/772-1, 774-1, 775-1, 777-1</code>
                <country>Germany</country>
            </grant_reference>
        </grant_support>
        <title>SPP1 Procapid I in cellula</title>
        <authors_list>
            <author ORCID="0000-0003-3964-5474">Corroyer-Dulmont S</author>
            <author ORCID="0000-0003-1834-0807">Labarde A</author>
            <author ORCID="0000-0001-8149-218X">Prazak V</author>
            <author ORCID="0000-0002-3424-2492">Godinho L</author>
            <author ORCID="0009-0005-8214-946X">Masson C</author>
            <author ORCID="0000-0003-2431-2255">Legrand P</author>
            <author ORCID="0000-0002-4788-2691">Gruenewald K</author>
            <author ORCID="0000-0002-2566-4546">Tavares P</author>
            <author ORCID="0000-0003-2919-3275">Quemin ERJ</author>
        </authors_list>
        <keywords>SPP1 Procapsid I SVA, VIRUS</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="false">
                    <author order="1">Corroyer-Dulmont S</author>
                    <author order="2">Labarde A</author>
                    <author order="3">Prazak V</author>
                    <author order="4">Godinho L</author>
                    <author order="5">Masson C</author>
                    <author order="6">Legrand P</author>
                    <author order="7">Gruenewald K</author>
                    <author order="8">Tavares P</author>
                    <author order="9">Quemin ERJ</author>
                    <title>SPP1_Procapsid_I_in_cellula</title>
                    <journal_abbreviation>To Be Published</journal_abbreviation>
                    <external_references type="CSD">0353</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <other_db_list>
            <db_reference>
                <db_name>EMDB</db_name>
                <accession_id>EMD-54016</accession_id>
                <content_type>associated EM volume</content_type>
            </db_reference>
        </other_db_list>
    </crossreferences>
    <sample>
        <name>Bacillus phage SPP1</name>
        <supramolecule_list>
            <virus_supramolecule supramolecule_id="1">
                <name>Bacillus phage SPP1</name>
                <parent>0</parent>
                <details>SPP1 bacterial virus multiplied by infection of Bacillus subtilis strain YB886</details>
                <sci_species_name ncbi="10724">Bacillus phage SPP1</sci_species_name>
                <natural_host database="NCBI">
                    <organism ncbi="224308">Bacillus subtilis subsp. subtilis str. 168</organism>
                    <strain>168</strain>
                </natural_host>
                <virus_shell shell_id="1">
                    <name>Major Capsid Protein gp13</name>
                    <diameter units="Å">550.0</diameter>
                    <triangulation>7</triangulation>
                </virus_shell>
                <virus_type>VIRION</virus_type>
                <virus_isolate>STRAIN</virus_isolate>
                <virus_enveloped>false</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>7.0</ph>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                    </vitrification>
                    <cryo_protectant>NA</cryo_protectant>
                    <sectioning>
                        <focused_ion_beam>
                            <instrument>OTHER</instrument>
                            <ion>OTHER</ion>
                            <voltage>30</voltage>
                            <current>0.03</current>
                            <duration>1800</duration>
                            <temperature units="K">77</temperature>
                            <initial_thickness>1000</initial_thickness>
                            <final_thickness>150</final_thickness>
                            <details>The value given for _em_focused_ion_beam.instrument is Aquilos 2. This is not in a list of allowed values {'DB235', 'OTHER'} so OTHER is written into the XML file.</details>
                        </focused_ion_beam>
                    </sectioning>
                </tomography_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <tomography_microscopy microscopy_id="1">
                    <microscope>TFS 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>
                    <c2_aperture_diameter units="µm">50.0</c2_aperture_diameter>
                    <nominal_cs units="mm">2.6</nominal_cs>
                    <nominal_defocus_min units="µm">4.0</nominal_defocus_min>
                    <nominal_defocus_max units="µm">5.0</nominal_defocus_max>
                    <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">180.0</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>
                    <number_images_used>40</number_images_used>
                </final_reconstruction>
                <ctf_correction>
                    <type>PHASE FLIPPING AND AMPLITUDE CORRECTION</type>
                </ctf_correction>
            </tomography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="2049">
        <file>emd_54016.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>80</col>
            <row>80</row>
            <sec>80</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>80</x>
            <y>80</y>
            <z>80</z>
        </spacing>
        <cell>
            <a units="Å">688.0</a>
            <b units="Å">688.0</b>
            <c units="Å">688.0</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>-9.155170999999999</minimum>
            <maximum>7.033722</maximum>
            <average>-2.31497</average>
            <std>1.6714419</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">8.6</x>
            <y units="Å">8.6</y>
            <z units="Å">8.6</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-54016::::</label>
        <annotation_details>Procapsid I map from SVA on lamella</annotation_details>
    </map>
</emd>
