<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-4048" version="3.0.0.0" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_0_0/emdb.xsd">
    <admin>
        <current_status>
            <date>2017-08-02</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2016-07-07</deposition>
            <header_release>2016-10-05</header_release>
            <map_release>2016-10-05</map_release>
            <update>2017-08-02</update>
        </key_dates>
        <title>CryoEM structure of the apo deletion mutant APC/C complex without Apc1 WD40 domain</title>
        <authors_list>
            <author>Li Q</author>
            <author>Chang L</author>
            <author>Zhang Z</author>
            <author>Yang J</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Li Q</author>
                    <author order="2">Chang L</author>
                    <author order="3">Aibara S</author>
                    <author order="4">Yang J</author>
                    <author order="5">Zhang Z</author>
                    <author order="6">Barford D</author>
                    <title>WD40 domain of Apc1 is critical for the coactivator-induced allosteric transition that stimulates APC/C catalytic activity.</title>
                    <journal_abbreviation>Proc.Natl.Acad.Sci.USA</journal_abbreviation>
                    <country>US</country>
                    <volume>113</volume>
                    <first_page>10547</first_page>
                    <last_page>10552</last_page>
                    <year>2016</year>
                    <external_references type="PUBMED">27601667</external_references>
                    <external_references type="DOI">doi:10.1073/pnas.1607147113</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-4048</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Apo deletion mutant APC/C complex without Apc1 WD40 domain</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>Apo deletion mutant APC/C complex without Apc1 WD40 domain</name>
                <parent>0</parent>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="7111">Trichoplusia ni</recombinant_organism>
                    <recombinant_plasmid>pFU</recombinant_plasmid>
                </recombinant_expression>
                <molecular_weight>
                    <theoretical units="MDa">1.1</theoretical>
                </molecular_weight>
            </complex_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>singleParticle</method>
            <aggregation_state>cell</aggregation_state>
            <specimen_preparation_list>
                <single_particle_preparation preparation_id="1">
                    <concentration units="mg/mL">0.12</concentration>
                    <buffer>
                        <ph>8.</ph>
                        <component>
                            <concentration units="mM">10.0</concentration>
                            <name>HEPES</name>
                        </component>
                        <component>
                            <concentration units="mM">150.0</concentration>
                            <name>NaCl</name>
                        </component>
                        <component>
                            <concentration units="mM">0.5</concentration>
                            <name>TCEP</name>
                        </component>
                        <details>Solutions were made fresh from powder and filtered to avoid microbial contamination.</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/2</model>
                        <material>COPPER</material>
                        <mesh>300</mesh>
                        <support_film film_type_id="1">
                            <film_material>CARBON</film_material>
                            <film_topology>HOLEY ARRAY</film_topology>
                            <film_thickness units="nm">30.0</film_thickness>
                        </support_film>
                        <pretreatment>
                            <type>PLASMA CLEANING</type>
                            <atmosphere>OTHER</atmosphere>
                        </pretreatment>
                        <details>The grid was coated with continuous carbon film prior to use.</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">277</chamber_temperature>
                        <instrument>FEI VITROBOT MARK III</instrument>
                        <details>Blot for 5 seconds before plunging. </details>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI POLARA 300</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>
                    <nominal_cs units="mm">2.0</nominal_cs>
                    <calibrated_defocus_min units="&#181;m">1.5</calibrated_defocus_min>
                    <calibrated_defocus_max units="&#181;m">4.0</calibrated_defocus_max>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <coma_free />
                    </alignment_procedure>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>FEI FALCON II (4k x 4k)</film_or_detector_model>
                            <detector_mode>OTHER</detector_mode>
                            <digitization_details>
                                <dimensions>
                                    <width units="pixel">4096</width>
                                    <height units="pixel">4096</height>
                                </dimensions>
                            </digitization_details>
                            <number_grids_imaged>6</number_grids_imaged>
                            <number_real_images>1470</number_real_images>
                            <average_exposure_time units="s">1.1</average_exposure_time>
                            <average_electron_dose_per_image units="e/&#8491;^2">14.6</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>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                </ctf_correction>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <algorithm>FOURIER SPACE</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">6.0</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                    <number_images_used>27166</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>OTHER</type>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>ANGULAR RECONSTITUTION</type>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>1.4</version>
                        </software>
                    </software_list>
                </final_angle_assignment>
                <final_three_d_classification>
                    <number_classes>10</number_classes>
                    <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="73600">
        <file>emd_4048.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>264</col>
            <row>264</row>
            <sec>264</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>264</x>
            <y>264</y>
            <z>264</z>
        </spacing>
        <cell>
            <a units="&#8491;">359.04</a>
            <b units="&#8491;">359.04</b>
            <c units="&#8491;">359.04</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>-0.26464668</minimum>
            <maximum>0.41095972</maximum>
            <average>0.0017946495</average>
            <std>0.016193775</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.36</x>
            <y units="&#8491;">1.36</y>
            <z units="&#8491;">1.36</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.08</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::D_1200000676::::</label>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <refinement_protocol>FLEXIBLE FIT</refinement_protocol>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
    </interpretation>
</emd>