<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2978" 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>2015-04-07</deposition>
         <header_release>2015-06-17</header_release>
         <map_release>2015-06-17</map_release>
         <update>2015-07-01</update>
      </key_dates>
      <title>Time-resolved Cryo Electron Microscopy of ribosome subunit association</title>
      <authors_list>
         <author>Chen B</author>
         <author>Kaledhonkar S</author>
         <author>Sun M</author>
         <author>Shen B</author>
         <author>Lu Z</author>
         <author>Barnard D</author>
         <author>Lu T</author>
         <author>Gonzalez Jr R</author>
         <author>Frank J</author>
      </authors_list>
      <keywords>time-resolved; cryo-EM; mixing-spraying; ribosome subunit association; structural dynamics</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Chen B</author>
               <author order="2">Kaledhonkar S</author>
               <author order="3">Sun M</author>
               <author order="4">Shen B</author>
               <author order="5">Lu Z</author>
               <author order="6">Barnard D</author>
               <author order="7">Lu T</author>
               <author order="8">Gonzalez Jr R</author>
               <author order="9">Frank J</author>
               <title>Structural dynamics of ribosome subunit association studied by mixing-spraying time-resolved cryogenic electron microscopy.</title>
               <journal>STRUCTURE</journal>
               <volume>23</volume>
               <first_page>1097</first_page>
               <last_page>1105</last_page>
               <year>2015</year>
               <external_references type="PUBMED">26004440</external_references>
               <external_references type="DOI">doi:10.1016/j.str.2015.04.007</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>4uis</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>E. Coli 70S Ribosome</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>E. Coli 70S Ribosome</name>
            <number_unique_components>1</number_unique_components>
         </sample_supramolecule>
         <complex_supramolecule supramolecule_id="1">
            <name>70S ribosome</name>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <strain>MRE600</strain>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <ribosome-details>ribosome-prokaryote: LSU 50S, SSU 30S</ribosome-details>
         </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">
               <buffer>
                  <ph>7.6</ph>
                  <details>25 mM Tris-HCl, 60 mM NH4Cl, 5 mM 2-mercaptoethanol, 3.5 mM MgCl2</details>
               </buffer>
               <grid>
                  <details>Quantifoil R2/2 300 mesh copper grid with thin carbon sipport</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">80</chamber_humidity>
                  <chamber_temperature units="K">80</chamber_temperature>
                  <instrument>OTHER</instrument>
                  <details>Equal volume of 1.2 microM 30S and 0.6 microM 50S (final concentration after mixing) were injected
into the mixing-spraying device each at flow rate of 3 microL/s. The
computer-controlled plunging device was purchased from Dr. Howard White (Eastern
Virginia Medical School, VA).</details>
                  <timed_resolved_state>Vitrified after spraying</timed_resolved_state>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_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">2</nominal_cs>
               <nominal_defocus_min units="&#181;m">2.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">4.0</nominal_defocus_max>
               <nominal_magnification>50000.0</nominal_magnification>
               <calibrated_magnification>66318.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_average units="K">80</temperature_average>
               </temperature>
               <details>Low dose, Data was collected over two years time</details>
               <date>2013-09-13</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                     <number_real_images>3402</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">17</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>CT 3500</specimen_holder>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>The partciles were selected with Autopicker (Langlois et al., 2014), and 3D classification and reconstruction with RELION</details>
            <ctf_correction>
               <details>each Micrograph</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">11.6</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>Arachnid, RELION, SPIDER</name>
                  </software>
               </software_list>
               <number_images_used>11129</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="16001">
      <file>emd_2978.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>160</col>
         <row>160</row>
         <sec>160</sec>
      </dimensions>
      <origin>
         <col>1</col>
         <row>1</row>
         <sec>1</sec>
      </origin>
      <spacing>
         <x>160</x>
         <y>160</y>
         <z>160</z>
      </spacing>
      <cell>
         <a units="&#8491;">359.216</a>
         <b units="&#8491;">359.216</b>
         <c units="&#8491;">359.216</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>-0.09098771</minimum>
         <maximum>0.1893954</maximum>
         <average>0.00143521</average>
         <std>0.02883799</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">2.2451</x>
         <y units="&#8491;">2.2451</y>
         <z units="&#8491;">2.2451</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.04</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of E. Coli naked 70S ribosome in rotated (RT) conformation</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2978::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2978.png</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>