<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_10/emdb.xsd" emdb_id="EMD-21952" version="3.0.1.10">
    <admin>
        <current_status>
            <date>2020-09-02</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2020-05-10</deposition>
            <header_release>2020-09-02</header_release>
            <map_release>2020-09-02</map_release>
            <update>2020-09-02</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)</funding_body>
                <code>P01NS092525</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)</funding_body>
                <code>5P41GM103832</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute on Aging (NIH/NIA)</funding_body>
                <code>PO1AG054407</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)</funding_body>
                <code>F32NS086253</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)</funding_body>
                <code>S10OD021600</code>
                <country>United States</country>
            </grant_reference>
        </grant_support>
        <title>Subtomogram average of ribosomes from tomograms of cryoFIB-SEM-generated lamellae of yeast cells under heat shock stress.</title>
        <authors_list>
            <author>Wu GH</author>
            <author>Mitchell PG</author>
            <author>Galaz-Montoya JG</author>
            <author>Hecksel CW</author>
            <author>Sontag EM</author>
            <author>Gangadharan V</author>
            <author>Marshman J</author>
            <author>Mankus D</author>
            <author>Bisher ME</author>
            <author>Lytton-Jean AKR</author>
            <author>Frydman J</author>
            <author>Czymmek K</author>
            <author>Chiu W</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="false">
                    <author order="1">Wu GH</author>
                    <author order="2">Mitchell PG</author>
                    <author order="3">Galaz-Montoya JG</author>
                    <author order="4">Hecksel CW</author>
                    <author order="5">Sontag EM</author>
                    <author order="6">Gangadharan V</author>
                    <author order="7">Marshman J</author>
                    <author order="8">Mankus D</author>
                    <author order="9">Bisher ME</author>
                    <author order="10">Lytton-Jean AKR</author>
                    <author order="11">Frydman J</author>
                    <author order="12">Czymmek K</author>
                    <author order="13">Chiu W</author>
                    <title>Multi-Scale 3D Cryo-Correlative Microscopy for Vitrified Cells</title>
                    <journal_abbreviation>To Be Published</journal_abbreviation>
                    <external_references type="CSD">0353</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-21952</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Yeast ribosome subtomogram average</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>Yeast ribosome subtomogram average</name>
                <parent>0</parent>
                <natural_source database="NCBI">
                    <organism ncbi="4932">Saccharomyces cerevisiae</organism>
                    <strain>BY4741</strain>
                </natural_source>
            </complex_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>subtomogramAveraging</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <subtomogram_averaging_preparation preparation_id="1">
                    <buffer>
                        <ph>7</ph>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <details></details>
                    </vitrification>
                </subtomogram_averaging_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <subtomogram_averaging_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>
                    <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>COUNTING</detector_mode>
                            <average_electron_dose_per_image units="e/Å^2">0.8264</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </subtomogram_averaging_microscopy>
            </microscopy_list>
            <subtomogram_averaging_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <final_reconstruction>
                    <number_classes_used>1</number_classes_used>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <algorithm>BACK PROJECTION</algorithm>
                    <resolution units="Å" res_type="BY AUTHOR">21.0</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                        </software>
                    </software_list>
                    <number_subtomograms_used>1459</number_subtomograms_used>
                </final_reconstruction>
                <extraction>
                    <number_tomograms>5</number_tomograms>
                    <number_images_used>3633</number_images_used>
                    <method>manual</method>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                        </software>
                    </software_list>
                </extraction>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>IMOD</name>
                        </software>
                    </software_list>
                    <details>3D CTF correction</details>
                </ctf_correction>
                <final_three_d_classification>
                    <number_classes>1</number_classes>
                    <average_number_members_per_class>1459</average_number_members_per_class>
                </final_three_d_classification>
                <final_angle_assignment>
                    <type>NOT APPLICABLE</type>
                    <software_list>
                        <software>
                            <name>IMOD</name>
                        </software>
                    </software_list>
                </final_angle_assignment>
            </subtomogram_averaging_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="8389">
        <file>emd_21952.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>128</col>
            <row>128</row>
            <sec>128</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>128</x>
            <y>128</y>
            <z>128</z>
        </spacing>
        <cell>
            <a units="Å">442.624</a>
            <b units="Å">442.624</b>
            <c units="Å">442.624</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>-0.7923188</minimum>
            <maximum>7.688226</maximum>
            <average>0.15580522</average>
            <std>0.67541677</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">3.458</x>
            <y units="Å">3.458</y>
            <z units="Å">3.458</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>1</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-21952::::</label>
        <annotation_details>Subtomogram average of ribosomes from tomograms of cryoFIB-SEM-generated lamellae of yeast cells under heat shock stress.</annotation_details>
    </map>
    <interpretation>
        <half_map_list>
            <half_map format="CCP4" size_kbytes="8389">
                <file>emd_21952_half_map_2.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                <dimensions>
                    <col>128</col>
                    <row>128</row>
                    <sec>128</sec>
                </dimensions>
                <origin>
                    <col>0</col>
                    <row>0</row>
                    <sec>0</sec>
                </origin>
                <spacing>
                    <x>128</x>
                    <y>128</y>
                    <z>128</z>
                </spacing>
                <cell>
                    <a units="Å">442.624</a>
                    <b units="Å">442.624</b>
                    <c units="Å">442.624</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>-0.7923188</minimum>
                    <maximum>7.688226</maximum>
                    <average>0.15580522</average>
                    <std>0.67541677</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">3.458</x>
                    <y units="Å">3.458</y>
                    <z units="Å">3.458</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-21952::::</label>
                <annotation_details>Subtomogram average of ribosomes from tomograms of cryoFIB-SEM-generated lamellae of yeast cells under heat shock stress. ODD MAP.</annotation_details>
            </half_map>
            <half_map format="CCP4" size_kbytes="8389">
                <file>emd_21952_half_map_1.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                <dimensions>
                    <col>128</col>
                    <row>128</row>
                    <sec>128</sec>
                </dimensions>
                <origin>
                    <col>0</col>
                    <row>0</row>
                    <sec>0</sec>
                </origin>
                <spacing>
                    <x>128</x>
                    <y>128</y>
                    <z>128</z>
                </spacing>
                <cell>
                    <a units="Å">442.624</a>
                    <b units="Å">442.624</b>
                    <c units="Å">442.624</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>-0.65387976</minimum>
                    <maximum>7.7522464</maximum>
                    <average>0.15660036</average>
                    <std>0.6761382</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">3.458</x>
                    <y units="Å">3.458</y>
                    <z units="Å">3.458</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-21952::::</label>
                <annotation_details>Subtomogram average of ribosomes from tomograms of cryoFIB-SEM-generated lamellae of yeast cells under heat shock stress. EVEN MAP.</annotation_details>
            </half_map>
        </half_map_list>
    </interpretation>
</emd>
