<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2528" 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>2013-12-05</deposition>
         <header_release>2013-12-18</header_release>
         <map_release>2014-03-26</map_release>
         <update>2014-04-02</update>
      </key_dates>
      <title>Arx1 pre-60S particle</title>
      <authors_list>
         <author>Leidig C</author>
         <author>Thoms M</author>
         <author>Holdermann I</author>
         <author>Bradatsch B</author>
         <author>Berninghausen O</author>
         <author>Bange G</author>
         <author>Sinning I</author>
         <author>Hurt E</author>
         <author>Beckmann R</author>
      </authors_list>
      <keywords>ribosome biogenesis, ribosome assembly, pre-60S, 5S RNP, assembly intermediate</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Leidig C</author>
               <author order="2">Thoms M</author>
               <author order="3">Holdermann I</author>
               <author order="4">Bradatsch B</author>
               <author order="5">Berninghausen O</author>
               <author order="6">Bange G</author>
               <author order="7">Sinning I</author>
               <author order="8">Hurt E</author>
               <author order="9">Beckmann R</author>
               <title>60S ribosome biogenesis requires rotation of the 5S ribonucleoprotein particle</title>
               <journal>NAT.COMMUN.</journal>
               <volume>5</volume>
               <first_page>3491</first_page>
               <year>2014</year>
               <external_references type="PUBMED">24662372</external_references>
               <external_references type="DOI">doi:10.1038/ncomms4491</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>4v7f</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>TAP purification of Alb1-TAP from yeast.</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>TAP purification of Alb1-TAP from yeast.</name>
            <number_unique_components>1</number_unique_components>
         </sample_supramolecule>
         <complex_supramolecule supramolecule_id="1">
            <name>Arx1 pre-60S particle</name>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="4932">Saccharomyces cerevisiae</organism>
               <synonym_organism>Baker's Yeast</synonym_organism>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <ribosome-details>ribosome-eukaryote: LSU 60S, LSU RNA 28S, LSU RNA 5.8S, LSU RNA 5S</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">
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">95</chamber_humidity>
                  <instrument>FEI VITROBOT MARK IV</instrument>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_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">200</acceleration_voltage>
               <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
               <date>2012-11-12</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">TVIPS TEMCAM-F416 (4k x 4k)</film_or_detector_model>
                     <number_real_images>5686</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">8.7</resolution>
               <resolution_method>OTHER</resolution_method>
               <number_images_used>75887</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="277181">
      <file>emd_2528.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>414</col>
         <row>414</row>
         <sec>414</sec>
      </dimensions>
      <origin>
         <col>-207</col>
         <row>-207</row>
         <sec>-206</sec>
      </origin>
      <spacing>
         <x>414</x>
         <y>414</y>
         <z>414</z>
      </spacing>
      <cell>
         <a units="&#8491;">439.047</a>
         <b units="&#8491;">439.047</b>
         <c units="&#8491;">439.047</c>
         <alpha units="deg">90.0</alpha>
         <beta units="deg">90.0</beta>
         <gamma units="deg">90.0</gamma>
      </cell>
      <axis_order>
         <fast>Y</fast>
         <medium>X</medium>
         <slow>Z</slow>
      </axis_order>
      <statistics>
         <minimum>-0.82164174</minimum>
         <maximum>2.00969124</maximum>
         <average>0.00647931</average>
         <std>0.15501215</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.0605</x>
         <y units="&#8491;">1.0605</y>
         <z units="&#8491;">1.0605</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.45</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Cryo-EM reconstruction of an early yeast Arx1 pre-60S particle purified via Alb1-TAP.</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2528::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>3U5D</access_code>
               <chain>
                  <chain_id>1</chain_id>
               </chain>
               <chain>
                  <chain_id>3</chain_id>
               </chain>
               <chain>
                  <chain_id>4</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <details>The coordinates were initially fitted by rigid body fitting before the structure was manually adjusted to the density and refined using molecular dynamics simulations.</details>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>3U5E</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
               <chain>
                  <chain_id>B</chain_id>
               </chain>
               <chain>
                  <chain_id>C</chain_id>
               </chain>
               <chain>
                  <chain_id>D</chain_id>
               </chain>
               <chain>
                  <chain_id>E</chain_id>
               </chain>
               <chain>
                  <chain_id>F</chain_id>
               </chain>
               <chain>
                  <chain_id>G</chain_id>
               </chain>
               <chain>
                  <chain_id>H</chain_id>
               </chain>
               <chain>
                  <chain_id>J</chain_id>
               </chain>
               <chain>
                  <chain_id>L</chain_id>
               </chain>
               <chain>
                  <chain_id>M</chain_id>
               </chain>
               <chain>
                  <chain_id>N</chain_id>
               </chain>
               <chain>
                  <chain_id>O</chain_id>
               </chain>
               <chain>
                  <chain_id>P</chain_id>
               </chain>
               <chain>
                  <chain_id>Q</chain_id>
               </chain>
               <chain>
                  <chain_id>R</chain_id>
               </chain>
               <chain>
                  <chain_id>S</chain_id>
               </chain>
               <chain>
                  <chain_id>T</chain_id>
               </chain>
               <chain>
                  <chain_id>U</chain_id>
               </chain>
               <chain>
                  <chain_id>V</chain_id>
               </chain>
               <chain>
                  <chain_id>X</chain_id>
               </chain>
               <chain>
                  <chain_id>Y</chain_id>
               </chain>
               <chain>
                  <chain_id>Z</chain_id>
               </chain>
               <chain>
                  <chain_id>a</chain_id>
               </chain>
               <chain>
                  <chain_id>c</chain_id>
               </chain>
               <chain>
                  <chain_id>d</chain_id>
               </chain>
               <chain>
                  <chain_id>e</chain_id>
               </chain>
               <chain>
                  <chain_id>f</chain_id>
               </chain>
               <chain>
                  <chain_id>g</chain_id>
               </chain>
               <chain>
                  <chain_id>h</chain_id>
               </chain>
               <chain>
                  <chain_id>i</chain_id>
               </chain>
               <chain>
                  <chain_id>j</chain_id>
               </chain>
               <chain>
                  <chain_id>k</chain_id>
               </chain>
               <chain>
                  <chain_id>l</chain_id>
               </chain>
               <chain>
                  <chain_id>p</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>3IZS</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
               <chain>
                  <chain_id>J</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>4B6A</access_code>
               <chain>
                  <chain_id>t</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>1G62</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
      <figure_list>
         <figure>
            <file>emd_2528.png</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>