<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2519" 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>2013-11-25</deposition>
         <header_release>2013-12-04</header_release>
         <map_release>2014-01-15</map_release>
         <update>2016-03-02</update>
      </key_dates>
      <title>Stalled mammalian ribosome bound to canine pancreatic microsomes</title>
      <authors_list>
         <author>Pfeffer S</author>
         <author>Dudek J</author>
         <author>Gogala M</author>
         <author>Schorr S</author>
         <author>Linxweiler J</author>
         <author>Lang S</author>
         <author>Becker T</author>
         <author>Beckmann R</author>
         <author>Zimmermann R</author>
         <author>Foerster F</author>
      </authors_list>
      <keywords>endoplasmic reticulum, translocon, ribosome, oligosaccharyltransferase, OST, protein-conducting channel, Sec61, translocon-associated protein complex, TRAP</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Pfeffer S</author>
               <author order="2">Dudek J</author>
               <author order="3">Gogala M</author>
               <author order="4">Schorr S</author>
               <author order="5">Linxweiler J</author>
               <author order="6">Lang S</author>
               <author order="7">Becker T</author>
               <author order="8">Beckmann R</author>
               <author order="9">Zimmermann R</author>
               <author order="10">Foerster F</author>
               <title>Structure of the mammalian oligosaccharyl-transferase complex in the native ER protein translocon.</title>
               <journal>NAT.COMMUN.</journal>
               <volume>5</volume>
               <first_page>3072</first_page>
               <last_page>3072</last_page>
               <year>2014</year>
               <external_references type="PUBMED">24407213</external_references>
               <external_references type="DOI">doi:10.1038/ncomms4072</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Ribosome-stripped canine pancreatic microsomes were populated with rabbit ribosomes, stalled on the CMV regulatory peptide.</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Ribosome-stripped canine pancreatic microsomes were populated with rabbit ribosomes, stalled on the CMV regulatory peptide.</name>
            <number_unique_components>2</number_unique_components>
         </sample_supramolecule>
         <complex_supramolecule supramolecule_id="1">
            <name>ER membrane-associated 80S ribosome</name>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="9986">Oryctolagus cuniculus</organism>
               <synonym_organism>Rabbit</synonym_organism>
               <cell>Reticulocyte</cell>
               <cellular_location>Cytosol</cellular_location>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <ribosome-details>ribosome-eukaryote: ALL</ribosome-details>
         </complex_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name>ER protein translocon</name>
            <natural_source database="NCBI">
               <organism ncbi="9615">Canis lupus familiaris</organism>
               <synonym_organism>Dog</synonym_organism>
               <tissue>Pancreas</tissue>
               <cellular_location>Endoplasmic reticulum</cellular_location>
            </natural_source>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <sequence>
               </sequence>
         </protein_or_peptide>
      </macromolecule_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">
               <concentration units="mg/mL">2</concentration>
               <grid>
                  <details>Lacey carbon molybdenum grid</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE-PROPANE MIXTURE</cryogen_name>
                  <chamber_humidity units="percentage">70</chamber_humidity>
                  <instrument>FEI VITROBOT MARK IV</instrument>
                  <method>Blot 3 seconds before plunging.</method>
               </vitrification>
            </subtomogram_averaging_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <subtomogram_averaging_microscopy microscopy_id="1">
               <microscope>FEI TITAN 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>
               <nominal_defocus_min units="&#181;m">3.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">5.0</nominal_defocus_max>
               <nominal_magnification>29000.0</nominal_magnification>
               <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
               <date>2012-08-15</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">FEI FALCON I (4k x 4k)</film_or_detector_model>
                     <average_electron_dose_per_image units="e/&#8491;^2">60</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
               <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">
            <details>Candidate particles were localized using template matching and classified using constrained principal component analysis focusing on the large ribosomal subunit and the ER membrane. At the selected coordinates, unbinned subtomograms were reconstructed individually from the weighted back-projections and aligned to a template.</details>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">22.0</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>av3, tom, PyTom</name>
                  </software>
               </software_list>
               <number_subtomograms_used>2896</number_subtomograms_used>
            </final_reconstruction>
            <ctf_correction>
               <details>micrograph</details>
            </ctf_correction>
         </subtomogram_averaging_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="31251">
      <file>emd_2519.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>200</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>200</x>
         <y>200</y>
         <z>200</z>
      </spacing>
      <cell>
         <a units="&#8491;">576.0</a>
         <b units="&#8491;">576.0</b>
         <c units="&#8491;">576.0</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>-7.01099348</minimum>
         <maximum>9.998406409999999</maximum>
         <average>0.0</average>
         <std>0.99999994</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">2.88</x>
         <y units="&#8491;">2.88</y>
         <z units="&#8491;">2.88</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>1.49</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Ribosome-stripped canine pancreatic microsomes were populated with rabbit ribosomes, stalled on the CMV regulatory peptide.</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2519::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2519.tif</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>