<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-8983" version="3.0.0.1" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_0_1/emdb.xsd">
    <admin>
        <current_status>
            <date>2018-11-21</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2018-07-21</deposition>
            <header_release>2018-08-22</header_release>
            <map_release>2018-11-21</map_release>
            <update>2018-11-21</update>
        </key_dates>
        <title>Asymmetric cryo-EM structure of immature Kunjin virus</title>
        <authors_list>
            <author>Therkelsen MD</author>
            <author>Klose T</author>
            <author>Vago F</author>
            <author>Jiang W</author>
            <author>Rossmann MG</author>
            <author>Kuhn RJ</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Therkelsen MD</author>
                    <author order="2">Klose T</author>
                    <author order="3">Vago F</author>
                    <author order="4">Jiang W</author>
                    <author order="5">Rossmann MG</author>
                    <author order="6">Kuhn RJ</author>
                    <title>Flaviviruses have imperfect icosahedral symmetry.</title>
                    <journal_abbreviation>Proc. Natl. Acad. Sci. U.S.A.</journal_abbreviation>
                    <country>US</country>
                    <volume>115</volume>
                    <first_page>11608</first_page>
                    <last_page>11612</last_page>
                    <year>2018</year>
                    <external_references type="PUBMED">30348794</external_references>
                    <external_references type="DOI">doi:10.1073/pnas.1809304115</external_references>
                    <external_references type="ISSN">1091-6490</external_references>
                    <external_references type="CSD">0040</external_references>
                    <external_references type="ASTM">PNASA6</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-8982</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>8982 contains the same dataset processed with icosahedral symmetry.</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-8983</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Kunjin virus (STRAIN MRM61C)</name>
        <supramolecule_list>
            <virus_supramolecule supramolecule_id="1">
                <name>Kunjin virus (STRAIN MRM61C)</name>
                <parent>0</parent>
                <details>Immature Kunjin virus purified from ammonium chloride-treated C6/36 cells.</details>
                <sci_species_name ncbi="11078">Kunjin virus (STRAIN MRM61C)</sci_species_name>
                <natural_host database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_host>
                <virus_shell shell_id="1">
                    <name>capsid shell</name>
                    <diameter units="&#8491;">560.0</diameter>
                    <triangulation>3</triangulation>
                </virus_shell>
                <virus_type>VIRION</virus_type>
                <virus_isolate>STRAIN</virus_isolate>
                <virus_enveloped>true</virus_enveloped>
                <virus_empty>false</virus_empty>
            </virus_supramolecule>
            <organelle_or_cellular_component_supramolecule supramolecule_id="2">
                <name>Glycoprotein shell</name>
                <parent>1</parent>
                <natural_source database="NCBI">
                    <organism ncbi="11078">Kunjin virus (STRAIN MRM61C)</organism>
                </natural_source>
            </organelle_or_cellular_component_supramolecule>
            <organelle_or_cellular_component_supramolecule supramolecule_id="3">
                <name>Nucleocapsid core</name>
                <parent>1</parent>
                <natural_source database="NCBI">
                    <organism ncbi="11078">Kunjin virus (STRAIN MRM61C)</organism>
                </natural_source>
            </organelle_or_cellular_component_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>8.</ph>
                    </buffer>
                    <grid>
                        <material>COPPER</material>
                        <mesh>400</mesh>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">85</chamber_humidity>
                        <instrument>GATAN CRYOPLUNGE 3</instrument>
                        <details>Blot for 6 seconds before plunging.. </details>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_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_cs units="mm">2.7</nominal_cs>
                    <nominal_defocus_min units="&#181;m">0.5</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">3.0</nominal_defocus_max>
                    <nominal_magnification>18000.</nominal_magnification>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <temperature>
                        <temperature_min units="K">80.0</temperature_min>
                        <temperature_max units="K">80.0</temperature_max>
                    </temperature>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K2 SUMMIT (4k x 4k)</film_or_detector_model>
                            <detector_mode>SUPER-RESOLUTION</detector_mode>
                            <digitization_details />
                            <number_real_images>387</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">24.0</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>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <resolution res_type="BY AUTHOR" units="&#8491;">20.0</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>2.1b1</version>
                        </software>
                    </software_list>
                    <number_images_used>7396</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </final_angle_assignment>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="131073">
        <file>emd_8983.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>320</col>
            <row>320</row>
            <sec>320</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>320</x>
            <y>320</y>
            <z>320</z>
        </spacing>
        <cell>
            <a units="&#8491;">1036.8</a>
            <b units="&#8491;">1036.8</b>
            <c units="&#8491;">1036.8</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>-0.0339802</minimum>
            <maximum>0.07238753</maximum>
            <average>0.000027152577</average>
            <std>0.0053210477</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">3.2400002</x>
            <y units="&#8491;">3.2400002</y>
            <z units="&#8491;">3.2400002</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.015</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-8983::::</label>
        <annotation_details>Asymmetric reconstruction of immature Kunjin virus.</annotation_details>
    </map>
</emd>