<?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-10956" version="3.0.1.10">
    <admin>
        <current_status>
            <date>2020-09-30</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2020-04-29</deposition>
            <header_release>2020-06-17</header_release>
            <map_release>2020-06-17</map_release>
            <update>2020-09-30</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>German Research Foundation (DFG)</funding_body>
                <code>research fellowship 385257318</code>
                <country>Germany</country>
            </grant_reference>
            <grant_reference>
                <funding_body>Biotechnology and Biological Sciences Research Council (BBSRC)</funding_body>
                <code>BB/L023091/1</code>
                <country>United Kingdom</country>
            </grant_reference>
        </grant_support>
        <title>In situ structure of the Caulobacter crescentus flagellar motor and visualization of binding of a CheY-homolog</title>
        <authors_list>
            <author>Rossmann FM</author>
            <author>Hug I</author>
            <author>Sangermani M</author>
            <author>Jenal U</author>
            <author>Beeby M</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Rossmann FM</author>
                    <author order="2">Hug I</author>
                    <author order="3">Sangermani M</author>
                    <author order="4">Jenal U</author>
                    <author order="5">Beeby M</author>
                    <title>In situ structure of the Caulobacter crescentus flagellar motor and visualization of binding of a CheY-homolog.</title>
                    <journal_abbreviation>Mol.Microbiol.</journal_abbreviation>
                    <country>UK</country>
                    <volume>114</volume>
                    <first_page>443</first_page>
                    <last_page>453</last_page>
                    <year>2020</year>
                    <external_references type="PUBMED">32449846</external_references>
                    <external_references type="DOI">doi:10.1111/mmi.14525</external_references>
                    <external_references type="ISSN">1365-2958</external_references>
                    <external_references type="CSD">2007</external_references>
                    <external_references type="ASTM">MOMIEE</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-10956</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Flagellar motor of Caulobactor crescentus CB 15, in situ, cheYs deletion pdeA deletion FliM_ID57WA pMT375 CleD-d6-a-GFP, C100 symmetrised</name>
        <supramolecule_list>
            <cell_supramolecule supramolecule_id="1">
                <name>Flagellar motor of Caulobactor crescentus CB 15, in situ, cheYs deletion pdeA deletion FliM_ID57WA pMT375 CleD-d6-a-GFP, C100 symmetrised</name>
                <parent>0</parent>
                <natural_source database="NCBI">
                    <organism ncbi="190650">Caulobacter vibrioides CB15</organism>
                </natural_source>
            </cell_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>
                        <component>
                            <name>peptone yeast extract; PYE medium</name>
                        </component>
                    </buffer>
                    <grid>
                        <model>UltrAuFoil</model>
                        <material>GOLD</material>
                        <mesh>200</mesh>
                        <support_film film_type_id="1">
                            <film_material>GOLD</film_material>
                            <film_topology>HOLEY</film_topology>
                            <film_thickness units="nm">50.0</film_thickness>
                        </support_film>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                            <atmosphere>AIR</atmosphere>
                            <pressure units="kPa">0.02</pressure>
                        </pretreatment>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE-PROPANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">298</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <details>blot time 5 s, blot force 3, wait time 60s, drain time 0.5s,. </details>
                    </vitrification>
                </subtomogram_averaging_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <subtomogram_averaging_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI F20</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">200</acceleration_voltage>
                    <c2_aperture_diameter units="µm">100.0</c2_aperture_diameter>
                    <nominal_cs units="mm">2.0</nominal_cs>
                    <nominal_defocus_min units="µm">3.0</nominal_defocus_min>
                    <nominal_defocus_max units="µm">4.0</nominal_defocus_max>
                    <nominal_magnification>29000.0</nominal_magnification>
                    <specimen_holder_model>GATAN 914 HIGH TILT LIQUID NITROGEN CRYO TRANSFER TOMOGRAPHY HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <basic/>
                    </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>INTEGRATING</detector_mode>
                            <digitization_details>
                                <dimensions>
                                    <width units="pixel">4096</width>
                                    <height units="pixel">4096</height>
                                </dimensions>
                            </digitization_details>
                            <number_grids_imaged>7</number_grids_imaged>
                            <average_exposure_time units="s">1.5</average_exposure_time>
                            <average_electron_dose_per_image units="e/Å^2">3.15</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>C100</point_group>
                    </applied_symmetry>
                    <algorithm>SIMULTANEOUS ITERATIVE (SIRT)</algorithm>
                    <resolution units="Å" res_type="BY AUTHOR">110.0</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>PEET</name>
                            <version>1.10.1</version>
                        </software>
                    </software_list>
                    <number_subtomograms_used>133</number_subtomograms_used>
                </final_reconstruction>
                <extraction>
                    <number_tomograms>127</number_tomograms>
                    <number_images_used>133</number_images_used>
                    <reference_model>sperical</reference_model>
                    <method>manual</method>
                    <software_list>
                        <software>
                            <name>PEET</name>
                            <version>1.10.1</version>
                        </software>
                    </software_list>
                </extraction>
                <final_angle_assignment>
                    <type>ANGULAR RECONSTITUTION</type>
                    <software_list>
                        <software>
                            <name>PEET</name>
                            <version>1.10.1</version>
                        </software>
                    </software_list>
                </final_angle_assignment>
            </subtomogram_averaging_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="62501">
        <file>emd_10956.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>250</col>
            <row>250</row>
            <sec>250</sec>
        </dimensions>
        <origin>
            <col>-125</col>
            <row>-125</row>
            <sec>-125</sec>
        </origin>
        <spacing>
            <x>250</x>
            <y>250</y>
            <z>250</z>
        </spacing>
        <cell>
            <a units="Å">1750.515</a>
            <b units="Å">1750.515</b>
            <c units="Å">1750.515</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>-0.53913355</minimum>
            <maximum>0.9900278</maximum>
            <average>0.0029722117</average>
            <std>0.15156096</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">7.00206</x>
            <y units="Å">7.00206</y>
            <z units="Å">7.00206</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.314</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-10956::::</label>
        <annotation_details>Flagellar motor of Caulobactor crescentus CB 15, in situ, cheYs deletion pdeA deletion FliM_ID57WA pMT375 CleD-d6-a-GFP, C100 symmetrised</annotation_details>
    </map>
</emd>
