<?xml version='1.0' encoding='utf-8'?>
<emd emdb_id="EMD-3507" version="3.0.1.3" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_3/emdb.xsd">
    <admin>
        <current_status>
            <date>2019-03-06</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2016-11-21</deposition>
            <header_release>2016-12-21</header_release>
            <map_release>2018-08-22</map_release>
            <update>2019-03-06</update>
        </key_dates>
        <title>IBDV E1-1A population</title>
        <authors_list>
            <author>Mata CP</author>
            <author>Mertens J</author>
            <author>Fontana J</author>
            <author>Luque D</author>
            <author>Allende-Ballestero C</author>
            <author>Reguera D</author>
            <author>Trus BL</author>
            <author>Steven AC</author>
            <author>Carrascosa JL</author>
            <author>Caston JR</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Mata CP</author>
                    <author order="2">Mertens J</author>
                    <author order="3">Fontana J</author>
                    <author order="4">Luque D</author>
                    <author order="5">Allende-Ballestero C</author>
                    <author order="6">Reguera D</author>
                    <author order="7">Trus BL</author>
                    <author order="8">Steven AC</author>
                    <author order="9">Carrascosa JL</author>
                    <author order="10">Caston JR</author>
                    <title>The RNA-binding protein of a double-stranded RNA virus acts like a scaffold protein.</title>
                    <journal_abbreviation>J. Virol.</journal_abbreviation>
                    <country>US</country>
                    <year>2018</year>
                    <external_references type="PUBMED">30021893</external_references>
                    <external_references type="DOI">doi:10.1128/JVI.00968-18</external_references>
                    <external_references type="ISSN">1098-5514</external_references>
                    <external_references type="CSD">0825</external_references>
                    <external_references type="ASTM">JOVIAM</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-3507</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Infectious bursal disease virus</name>
        <supramolecule_list>
            <virus_supramolecule supramolecule_id="1">
                <name>Infectious bursal disease virus</name>
                <parent>0</parent>
                <sci_species_name ncbi="10995">Infectious bursal disease virus</sci_species_name>
                <natural_host database="NCBI">
                    <organism ncbi="9031">Gallus gallus</organism>
                </natural_host>
                <molecular_weight>
                    <experimental units="MDa">50</experimental>
                </molecular_weight>
                <virus_shell shell_id="1">
                    <name>VP2</name>
                    <diameter units="Å">700.0</diameter>
                    <triangulation>13</triangulation>
                </virus_shell>
                <virus_type>VIRION</virus_type>
                <virus_isolate>STRAIN</virus_isolate>
                <virus_enveloped>false</virus_enveloped>
                <virus_empty>true</virus_empty>
            </virus_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>singleParticle</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <single_particle_preparation preparation_id="1">
                    <buffer>
                        <ph>6.2</ph>
                        <details>25 mM PIPES pH 6.2, 150 mM NaCl, 20 mM CaCl2</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/2</model>
                        <material>COPPER/RHODIUM</material>
                        <mesh>300</mesh>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <instrument>LEICA EM CPC</instrument>
                        <details />
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI F20</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">200</acceleration_voltage>
                    <nominal_cs units="mm">2.26</nominal_cs>
                    <calibrated_defocus_min units="µm">0.7</calibrated_defocus_min>
                    <calibrated_defocus_max units="µm">5.0</calibrated_defocus_max>
                    <nominal_magnification>50000.</nominal_magnification>
                    <specimen_holder_model>GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <basic />
                    </alignment_procedure>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>FEI EAGLE (4k x 4k)</film_or_detector_model>
                            <average_electron_dose_per_image units="e/Å^2">10.0</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <particle_selection>
                    <number_selected>5565</number_selected>
                    <details>Includes E1-1A and E1-1B particles further classified</details>
                </particle_selection>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>CTFFIND</name>
                            <version>3</version>
                        </software>
                    </software_list>
                </ctf_correction>
                <startup_model type_of_model="EMDB MAP">
                    <emdb_id>EMD-1118</emdb_id>
                </startup_model>
                <final_reconstruction>
                    <number_classes_used>1</number_classes_used>
                    <applied_symmetry>
                        <point_group>I</point_group>
                    </applied_symmetry>
                    <algorithm>FOURIER SPACE</algorithm>
                    <resolution res_type="BY AUTHOR" units="Å">28.2</resolution>
                    <resolution_method>FSC 0.33 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                    <number_images_used>2095</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing />
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing />
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                </final_angle_assignment>
                <final_three_d_classification>
                    <number_classes>2</number_classes>
                    <average_number_members_per_class>2095.0</average_number_members_per_class>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                </final_three_d_classification>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="32001">
        <file>emd_3507.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>200</col>
            <row>200</row>
            <sec>200</sec>
        </dimensions>
        <origin>
            <col>-100</col>
            <row>-100</row>
            <sec>-100</sec>
        </origin>
        <spacing>
            <x>200</x>
            <y>200</y>
            <z>200</z>
        </spacing>
        <cell>
            <a units="Å">864.00006</a>
            <b units="Å">864.00006</b>
            <c units="Å">864.00006</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>-0.009855834</minimum>
            <maximum>0.018643128</maximum>
            <average>0.0007552955</average>
            <std>0.0037259003</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">4.32</x>
            <y units="Å">4.32</y>
            <z units="Å">4.32</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.00125</level>
                <source>EMDB</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-3507::::</label>
        <annotation_details>Infectious Bursal Disease Virus (IBDV) E1-1A population</annotation_details>
    </map>
</emd>