<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-3848" 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>2017-11-08</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2017-08-13</deposition>
            <header_release>2017-10-18</header_release>
            <map_release>2017-10-18</map_release>
            <update>2017-11-08</update>
        </key_dates>
        <title>Single particle cryo-STEM of ferritin with 48 Zn atoms</title>
        <authors_list>
            <author>Elad N</author>
            <author>Bellapadrona G</author>
            <author>Houben L</author>
            <author>Sagi I</author>
            <author>Elbaum M</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Elad N</author>
                    <author order="2">Bellapadrona G</author>
                    <author order="3">Houben L</author>
                    <author order="4">Sagi I</author>
                    <author order="5">Elbaum M</author>
                    <title>Detection of isolated protein-bound metal ions by single-particle cryo-STEM.</title>
                    <journal_abbreviation>Proc. Natl. Acad. Sci. U.S.A.</journal_abbreviation>
                    <country>US</country>
                    <volume>114</volume>
                    <first_page>11139</first_page>
                    <last_page>11144</last_page>
                    <year>2017</year>
                    <external_references type="PUBMED">28973937</external_references>
                    <external_references type="DOI">doi:10.1073/pnas.1708609114</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-3849</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Contains ferritin with Fe at low stoichiometry reconstructed from cryo-STEM images</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-3848</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Human heavy chain ferritin with Zn</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>Human heavy chain ferritin with Zn</name>
                <parent>0</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <details>Bacterially expressed and purified human heavy chain ferritin mixed with a 48 fold molar excess of Zn(II)SO4</details>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <molecular_weight>
                    <theoretical units="MDa">0.504</theoretical>
                </molecular_weight>
            </complex_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">
                    <concentration units="mg/mL">0.13</concentration>
                    <buffer>
                        <ph>7.2</ph>
                        <component>
                            <concentration units="mM">50.0</concentration>
                            <formula>HEPES-NaOH</formula>
                        </component>
                        <component>
                            <concentration units="M">0.2</concentration>
                            <formula>NaCl</formula>
                        </component>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/1</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>
                        <support_film film_type_id="2">
                            <film_material>CARBON</film_material>
                            <film_topology>CONTINUOUS</film_topology>
                        </support_film>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                            <atmosphere>AIR</atmosphere>
                        </pretreatment>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">95</chamber_humidity>
                        <chamber_temperature units="K">297</chamber_temperature>
                        <instrument>LEICA EM GP</instrument>
                        <details />
                    </vitrification>
                    <details>For metal loading, stock protein (2.9 mg/ml) was diluted to 0.25 mg/ml and mixed with a 48 fold molar excess of Zn(II)SO4.</details>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI 20</microscope>
                    <illumination_mode>OTHER</illumination_mode>
                    <imaging_mode>DARK FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">200</acceleration_voltage>
                    <c2_aperture_diameter units="&#181;m">70.0</c2_aperture_diameter>
                    <nominal_cs units="mm">2.0</nominal_cs>
                    <nominal_magnification>450000.</nominal_magnification>
                    <specimen_holder_model>GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <details>STEM mode imaging using Fischione model 3000 HAADF detector. Camera length: 520 mm.</details>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>OTHER</film_or_detector_model>
                            <digitization_details>
                                <dimensions>
                                    <width units="pixel">2048</width>
                                    <height units="pixel">2048</height>
                                </dimensions>
                            </digitization_details>
                            <number_grids_imaged>1</number_grids_imaged>
                            <number_real_images>15</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">127.0</average_electron_dose_per_image>
                            <details>ADF images collected with a Fischione Model 3000 high-angle annular DF detector</details>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <details>Fischione 3000 HAADF</details>
                <particle_selection>
                    <number_selected>647</number_selected>
                    <details>Manually selected</details>
                </particle_selection>
                <startup_model type_of_model="PDB ENTRY">
                    <pdb_model>
                        <pdb_id>2CEI</pdb_id>
                    </pdb_model>
                    <details>The initial model was prepared from the human ferritin heavy chain crystal structure from which all heavy atoms were removed. The protein PDB coordinates were converted to structure factors and low pass filtered to 4 nm.</details>
                </startup_model>
                <final_reconstruction>
                    <number_classes_used>1</number_classes_used>
                    <applied_symmetry>
                        <point_group>O</point_group>
                    </applied_symmetry>
                    <resolution res_type="BY AUTHOR" units="&#8491;">21.0</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>647</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>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="2049">
        <file>emd_3848.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="&#8491;">264.0</a>
            <b units="&#8491;">264.0</b>
            <c units="&#8491;">264.0</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>-0.015605306</minimum>
            <maximum>0.04583275</maximum>
            <average>0.00081661536</average>
            <std>0.0044908705</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">3.3</x>
            <y units="&#8491;">3.3</y>
            <z units="&#8491;">3.3</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.043</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-3848::::</label>
        <annotation_details>Ferritin with 48 Zn atoms from single particle cryo-STEM data</annotation_details>
    </map>
</emd>