<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2633" version="3.0.1.1" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_1/emdb_relaxed.xsd">
   <admin>
      <current_status>
         <code>REL</code>
         <processing_site>PDBe</processing_site>
      </current_status>
      <sites>
         <deposition>PDBe</deposition>
         <last_processing>PDBe</last_processing>
      </sites>
      <key_dates>
         <deposition>2014-04-23</deposition>
         <header_release>2014-05-14</header_release>
         <map_release>2014-07-02</map_release>
         <update>2014-08-27</update>
      </key_dates>
      <title>Outer arm dynein dimer from mouse respiratory cilia in pre-power stroke (SH-P)</title>
      <authors_list>
         <author>Ueno H</author>
         <author>Bui KH</author>
         <author>Ishikawa T</author>
         <author>Imai Y</author>
         <author>Yamaguchi T</author>
         <author>Ishikawa T</author>
      </authors_list>
      <keywords>dynein, ATP, cilia, cryo-electron tomography</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Ueno H</author>
               <author order="2">Bui KH</author>
               <author order="3">Ishikawa T</author>
               <author order="4">Imai Y</author>
               <author order="5">Yamaguchi T</author>
               <author order="6">Ishikawa T</author>
               <title>Structure of dimeric axonemal dynein in cilia suggests an alternative mechanism of force generation</title>
               <journal>Cytoskeleton</journal>
               <volume>71</volume>
               <first_page>412</first_page>
               <last_page>422</last_page>
               <year>2014</year>
               <external_references type="PUBMED">24953776</external_references>
               <external_references type="DOI">doi:10.1002/cm.21180</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>dynein dimer in the SH-P form (pre-power stroke)</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>dynein dimer in the SH-P form (pre-power stroke)</name>
            <number_unique_components>1</number_unique_components>
         </sample_supramolecule>
         <organelle_or_cellular_component_supramolecule supramolecule_id="1">
            <name>Cilia</name>
            <oligomeric_state>dimer</oligomeric_state>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="10090">Mus musculus</organism>
               <strain>C57Bl/6</strain>
               <synonym_organism>house mouse</synonym_organism>
               <tissue>trachea</tissue>
               <cell>epidermal</cell>
               <organelle>cilia</organelle>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
         </organelle_or_cellular_component_supramolecule>
      </supramolecule_list>
   </sample>
   <structure_determination_list>
      <structure_determination structure_determination_id="1">
         <method>subtomogramAveraging</method>
         <aggregation_state>cell</aggregation_state>
         <specimen_preparation_list>
            <subtomogram_averaging_preparation preparation_id="1">
               <grid>
                  <details>Quantifoil holey grids</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">100</chamber_humidity>
                  <chamber_temperature units="K">100</chamber_temperature>
                  <instrument>FEI VITROBOT MARK IV</instrument>
                  <method>Blot for 2 seconds before plunging</method>
               </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>
               <nominal_cs units="mm">1.5</nominal_cs>
               <nominal_defocus_min units="&#181;m">3.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">5.0</nominal_defocus_max>
               <nominal_magnification>30000.0</nominal_magnification>
               <calibrated_magnification>19303.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_min units="K">90</temperature_min>
                  <temperature_max units="K">100</temperature_max>
                  <temperature_average units="K">95</temperature_average>
               </temperature>
               <specialist_optics>
                  <energy_filter>
                     <name>GIF Tridiem</name>
                     <lower_energy_threshold units="eV">20.0</lower_energy_threshold>
                     <upper_energy_threshold units="eV">25.0</upper_energy_threshold>
                  </energy_filter>
               </specialist_optics>
               <date>2010-12-14</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 1000 (2k x 2k)</film_or_detector_model>
                     <average_electron_dose_per_image units="e/&#8491;^2">40</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>626</specimen_holder>
               <tilt_series>
                  <axis1>
                     <min_angle units="deg">-60</min_angle>
                     <max_angle units="deg">60</max_angle>
                  </axis1>
               </tilt_series>
            </subtomogram_averaging_microscopy>
         </microscopy_list>
         <subtomogram_averaging_processing image_processing_id="1">
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">40.0</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>IMOD</name>
                  </software>
               </software_list>
               <number_subtomograms_used>61</number_subtomograms_used>
            </final_reconstruction>
         </subtomogram_averaging_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="12501">
      <file>emd_2633.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>200</col>
         <row>200</row>
         <sec>80</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>-70</sec>
      </origin>
      <spacing>
         <x>200</x>
         <y>200</y>
         <z>80</z>
      </spacing>
      <cell>
         <a units="&#8491;">1450.0</a>
         <b units="&#8491;">1450.0</b>
         <c units="&#8491;">580.0</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>-6.66773272</minimum>
         <maximum>10.13240242</maximum>
         <average>0.0087037</average>
         <std>1.07533503</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">7.25</x>
         <y units="&#8491;">7.25</y>
         <z units="&#8491;">7.25</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.2</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>subtomogram averaging of dynein dimers from mouse respiratory cilia in the SH-P form (pre-power stroke)</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2633::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>3VKG</access_code>
            </initial_model>
            <refinement_protocol>FLEXIBLE FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <details>AAA domains, stalk, and buttress are considered as a rigid body. Only the linker was flexibly fitted.</details>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
   </interpretation>
</emd>