<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2603" 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>2014-03-05</deposition>
         <header_release>2014-04-09</header_release>
         <map_release>2014-05-14</map_release>
         <update>2014-05-21</update>
      </key_dates>
      <title>Kluyveromyces lactis 80S ribosome in complex with CrPV-IRES</title>
      <authors_list>
         <author>Fernandez IS</author>
         <author>Bai X</author>
         <author>Scheres SHW</author>
         <author>Ramakrishnan V</author>
      </authors_list>
      <keywords>translation.ribosome, eukaryote, initiaction</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Fernandez IS</author>
               <author order="2">Bai X</author>
               <author order="3">Murshudov G</author>
               <author order="4">Scheres SHW</author>
               <author order="5">Ramakrishnan V</author>
               <title>Initiation of translation by cricket paralysis virus IRES requires its translocation in the ribosome</title>
               <journal>CELL(CAMBRIDGE,MASS.)</journal>
               <volume>157</volume>
               <first_page>823</first_page>
               <last_page>831</last_page>
               <year>2014</year>
               <external_references type="PUBMED">24792965</external_references>
               <external_references type="DOI">doi:10.1016/j.cell.2014.04.015</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>4v92</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>Kluyveromyces lactis 80S ribosome in complex with CrPV-IRES</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Kluyveromyces lactis 80S ribosome in complex with CrPV-IRES</name>
            <number_unique_components>2</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">3.8</experimental>
               <theoretical units="MDa">3.8</theoretical>
               <method>Sedimentation</method>
            </molecular_weight>
         </sample_supramolecule>
         <complex_supramolecule supramolecule_id="1">
            <name synonym="Kluyveromyces lactis 80S ribosome">Kluyveromyces lactis 80S ribosome</name>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="28985">Kluyveromyces lactis</organism>
               <strain>Kluyveromyces lactis</strain>
               <synonym_organism>Kluyveromyces lactis</synonym_organism>
               <tissue>Kluyveromyces lactis</tissue>
               <cell>Kluyveromyces lactis</cell>
               <organelle>Kluyveromyces lactis</organelle>
               <cellular_location>Kluyveromyces lactis</cellular_location>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <molecular_weight>
               <experimental units="MDa">3.2</experimental>
               <theoretical units="MDa">3.2</theoretical>
            </molecular_weight>
            <ribosome-details>ribosome-eukaryote: ALL</ribosome-details>
         </complex_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name>CrPV-IRES</name>
            <natural_source database="NCBI">
               <organism ncbi="12136">Cricket paralysis virus</organism>
            </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>singleParticle</method>
         <aggregation_state>particle</aggregation_state>
         <specimen_preparation_list>
            <single_particle_preparation preparation_id="1">
               <concentration units="mg/mL">0.1</concentration>
               <buffer>
                  <ph>6.5</ph>
                  <details>10mM MES-KOH, 40mM K-acetate, 10mM NH4-acetated, 8mM Mg-acetate, 2mM DTT</details>
               </buffer>
               <grid>
                  <details>400mesh R2/2 Quantifoil grids</details>
               </grid>
               <vitrification>
                  <cryogen_name>PROPANE</cryogen_name>
                  <chamber_humidity units="percentage">90</chamber_humidity>
                  <chamber_temperature units="K">120</chamber_temperature>
                  <instrument>FEI VITROBOT MARK I</instrument>
                  <timed_resolved_state>30 second incubation time</timed_resolved_state>
                  <method>2.5 seconds blot</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI TITAN KRIOS</microscope>
               <illumination_mode>OTHER</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>FIELD EMISSION GUN</electron_source>
               <acceleration_voltage units="kV">300</acceleration_voltage>
               <nominal_cs units="mm">2.7</nominal_cs>
               <nominal_defocus_min units="&#181;m">0.0018</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">0.003</nominal_defocus_max>
               <nominal_magnification>47000.0</nominal_magnification>
               <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
               <date>2013-07-07</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">FEI FALCON II (4k x 4k)</film_or_detector_model>
                     <number_real_images>1900</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">40</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>Sample movement corrected as implemented in Relion</details>
            <ctf_correction>
               <details>Each particle</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">3.6</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>Relion</name>
                  </software>
               </software_list>
               <number_images_used>28421</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
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      <file>emd_2603.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>320</col>
         <row>320</row>
         <sec>320</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>320</x>
         <y>320</y>
         <z>320</z>
      </spacing>
      <cell>
         <a units="&#8491;">428.80002</a>
         <b units="&#8491;">428.80002</b>
         <c units="&#8491;">428.80002</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>-0.83652657</minimum>
         <maximum>1.22832024</maximum>
         <average>0.0035031</average>
         <std>0.04558808</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.34</x>
         <y units="&#8491;">1.34</y>
         <z units="&#8491;">1.34</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.12</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Kluyveromyces lactis 80S ribosome in complex with CrPV-IRES in a partially rotated configuration</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2603::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>3U5B</access_code>
            </initial_model>
            <refinement_protocol>FLEXIBLE FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera, refmac</name>
               </software>
            </software_list>
            <target_criteria>R-factor, FSC</target_criteria>
            <refinement_space>RECIPROCAL</refinement_space>
            <overall_bvalue>60.0</overall_bvalue>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>3U5D</access_code>
            </initial_model>
            <refinement_protocol>FLEXIBLE FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera, refmac</name>
               </software>
            </software_list>
            <target_criteria>R-factor, FSC</target_criteria>
            <refinement_space>RECIPROCAL</refinement_space>
            <overall_bvalue>60.0</overall_bvalue>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>3U5C</access_code>
            </initial_model>
            <refinement_protocol>FLEXIBLE FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera, refmac</name>
               </software>
            </software_list>
            <target_criteria>R-factor, FSC</target_criteria>
            <refinement_space>RECIPROCAL</refinement_space>
            <overall_bvalue>60.0</overall_bvalue>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>3U5E</access_code>
            </initial_model>
            <refinement_protocol>FLEXIBLE FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera, refmac</name>
               </software>
            </software_list>
            <target_criteria>R-factor, FSC</target_criteria>
            <refinement_space>RECIPROCAL</refinement_space>
            <overall_bvalue>60.0</overall_bvalue>
         </modelling>
      </modelling_list>
   </interpretation>
</emd>