<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-7811" 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>2018-10-24</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2018-04-22</deposition>
            <header_release>2018-05-16</header_release>
            <map_release>2018-09-05</map_release>
            <update>2018-10-24</update>
        </key_dates>
        <title>Subtomogram average (702 axonemal repeats) of isolated Rib72B knock out Tetrahymena cilia showing the lumen of the ciliary doublet microtubule (DMT)</title>
        <authors_list>
            <author>Stoddard D</author>
            <author>Zhao Y</author>
            <author>Bayless B</author>
            <author>Gui L</author>
            <author>Louka P</author>
            <author>Dave D</author>
            <author>Surwayanshi S</author>
            <author>Tomasi R</author>
            <author>Dupuis-Williams P</author>
            <author>Baroud C</author>
            <author>Gaertig J</author>
            <author>Winey M</author>
            <author>Nicastro D</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Stoddard D</author>
                    <author order="2">Zhao Y</author>
                    <author order="3">Bayless BA</author>
                    <author order="4">Gui L</author>
                    <author order="5">Louka P</author>
                    <author order="6">Dave D</author>
                    <author order="7">Suryawanshi S</author>
                    <author order="8">Tomasi RF</author>
                    <author order="9">Dupuis-Williams P</author>
                    <author order="10">Baroud CN</author>
                    <author order="11">Gaertig J</author>
                    <author order="12">Winey M</author>
                    <author order="13">Nicastro D</author>
                    <title>Tetrahymena RIB72A and RIB72B are microtubule inner proteins in the ciliary doublet microtubules.</title>
                    <journal_abbreviation>Mol. Biol. Cell</journal_abbreviation>
                    <country>US</country>
                    <volume>29</volume>
                    <first_page>2566</first_page>
                    <last_page>2577</last_page>
                    <year>2018</year>
                    <external_references type="PUBMED">30133348</external_references>
                    <external_references type="DOI">doi:10.1091/mbc.E18-06-0405</external_references>
                    <external_references type="ISSN">1939-4586</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-7805</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Rib72ABKO</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-7806</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Rib72AKO</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-7807</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Rib72BKO:Rib72B-GFP rescue</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-7811</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Subtomogram average (702 axonemal repeats) of isolated Rib72B knock out Tetrahymena cilia showing the lumen of the ciliary doublet microtubule (DMT)</name>
        <supramolecule_list>
            <organelle_or_cellular_component_supramolecule supramolecule_id="1">
                <name>Subtomogram average (702 axonemal repeats) of isolated Rib72B knock out Tetrahymena cilia showing the lumen of the ciliary doublet microtubule (DMT)</name>
                <parent>0</parent>
                <natural_source database="NCBI">
                    <organism ncbi="5911">Tetrahymena thermophila</organism>
                    <strain>Rib72B KO</strain>
                </natural_source>
            </organelle_or_cellular_component_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>subtomogramAveraging</method>
            <aggregation_state>tissue</aggregation_state>
            <specimen_preparation_list>
                <subtomogram_averaging_preparation preparation_id="1">
                    <buffer>
                        <ph>7.4</ph>
                        <component>
                            <concentration units="mM">30.0</concentration>
                            <formula>C8H18N2O4S</formula>
                            <name>HEPES</name>
                        </component>
                        <component>
                            <concentration units="mM">25.0</concentration>
                            <formula>KCL</formula>
                            <name>potassium chloride</name>
                        </component>
                        <component>
                            <concentration units="mM">5.0</concentration>
                            <formula>MgSO4</formula>
                            <name>magnesium sulfate</name>
                        </component>
                        <component>
                            <concentration units="mM">1.0</concentration>
                            <name>EGTA</name>
                        </component>
                        <component>
                            <concentration units="mM">0.1</concentration>
                            <name>EDTA</name>
                        </component>
                        <details>Solutions were freshly made before use</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/2</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>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                            <atmosphere>AIR</atmosphere>
                            <pressure units="kPa">101.325</pressure>
                        </pretreatment>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_temperature units="K">100</chamber_temperature>
                        <instrument>HOMEMADE PLUNGER</instrument>
                        <details>back-side blotting for 1.5-2.5 seconds before plunging. </details>
                    </vitrification>
                </subtomogram_averaging_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <subtomogram_averaging_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI F30</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_defocus_min units="&#181;m">6.0</nominal_defocus_min>
                    <calibrated_defocus_max units="&#181;m">8.0</calibrated_defocus_max>
                    <calibrated_magnification>13500.</calibrated_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <coma_free />
                    </alignment_procedure>
                    <specialist_optics>
                        <energy_filter>
                            <name>GIF 2000</name>
                            <lower_energy_threshold units="eV">0</lower_energy_threshold>
                            <upper_energy_threshold units="eV">20</upper_energy_threshold>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN ULTRASCAN 1000 (2k x 2k)</film_or_detector_model>
                            <average_electron_dose_per_image units="e/&#8491;^2">1.5</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>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <resolution res_type="BY AUTHOR" units="&#8491;">40.1</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>IMOD</name>
                        </software>
                    </software_list>
                    <number_subtomograms_used>702</number_subtomograms_used>
                </final_reconstruction>
                <extraction>
                    <number_tomograms>5</number_tomograms>
                    <number_images_used>702</number_images_used>
                    <software_list>
                        <software>
                            <name>MATLAB</name>
                        </software>
                    </software_list>
                </extraction>
                <final_angle_assignment>
                    <type>ANGULAR RECONSTITUTION</type>
                    <software_list>
                        <software>
                            <name>PEET</name>
                        </software>
                    </software_list>
                </final_angle_assignment>
            </subtomogram_averaging_processing>
        </structure_determination>
    </structure_determination_list>
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        <file>emd_7811.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>100</col>
            <row>100</row>
            <sec>100</sec>
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            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>100</x>
            <y>100</y>
            <z>100</z>
        </spacing>
        <cell>
            <a units="&#8491;">1077.0</a>
            <b units="&#8491;">1077.0</b>
            <c units="&#8491;">1077.0</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>79.182220000000001</minimum>
            <maximum>173.568600000000004</maximum>
            <average>120.145256000000003</average>
            <std>10.237954999999999</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">10.77</x>
            <y units="&#8491;">10.77</y>
            <z units="&#8491;">10.77</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>126.</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-7811::::</label>
        <annotation_details>Rib72B_KO_702</annotation_details>
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