<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2620" 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>2014-03-31</deposition>
         <header_release>2014-04-16</header_release>
         <map_release>2014-07-09</map_release>
         <update>2014-12-10</update>
      </key_dates>
      <title>POST-translocational 80S ribosomal state of Regulation of the mammalian elongation cycle by 40S subunit rolling: a eukaryotic-specific ribosome rearrangement</title>
      <authors_list>
         <author>Budkevich TV</author>
         <author>Giesebrecht J</author>
         <author>Behrmann E</author>
         <author>Loerke J</author>
         <author>Ramrath D</author>
         <author>Mielke T</author>
         <author>Ismer J</author>
         <author>Hildebrand P</author>
         <author>Tung C-S</author>
         <author>Nierhaus KH</author>
         <author>Sanbonmatsu KY</author>
         <author>Spahn CMT</author>
      </authors_list>
      <keywords>translation, mammalian 80S ribosome, elongation cycle, post-translocational state, tRNA selection, cryo-electron microscopy</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Budkevich TV</author>
               <author order="2">Giesebrecht J</author>
               <author order="3">Behrmann E</author>
               <author order="4">Loerke J</author>
               <author order="5">Ramrath D</author>
               <author order="6">Mielke T</author>
               <author order="7">Ismer J</author>
               <author order="8">Hildebrand P</author>
               <author order="9">Tung C-S</author>
               <author order="10">Nierhaus KH</author>
               <author order="11">Sanbonmatsu KY</author>
               <author order="12">Spahn CMT</author>
               <title>Regulation of the mammalian elongation cycle by 40S subunit rolling: a eukaryotic-specific ribosome rearrangement</title>
               <journal>CELL(CAMBRIDGE,MASS.)</journal>
               <volume>158</volume>
               <first_page>121</first_page>
               <last_page>131</last_page>
               <year>2014</year>
               <external_references type="PUBMED">24995983</external_references>
               <external_references type="DOI">doi:10.1016/j.cell.2014.04.044</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>4uje</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>POST-translocational rabbit 80S ribosome with two tRNAs and mRNA bound</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>POST-translocational rabbit 80S ribosome with two tRNAs and mRNA bound</name>
            <details>80S were re-associated from 40S and 60S subunits and the sample prepared in vitro from individual components</details>
            <oligomeric_state>Two tRNAs and one mRNA bound to one 80S ribosome</oligomeric_state>
            <number_unique_components>4</number_unique_components>
            <molecular_weight>
               <theoretical units="MDa">4.5</theoretical>
            </molecular_weight>
         </sample_supramolecule>
         <complex_supramolecule supramolecule_id="1">
            <name synonym="80S ribosome">re-associated 80S</name>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="9986">Oryctolagus cuniculus</organism>
               <synonym_organism>Rabbit</synonym_organism>
               <tissue>Liver</tissue>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <molecular_weight>
               <theoretical units="MDa">4.5</theoretical>
            </molecular_weight>
            <ribosome-details>ribosome-eukaryote: ALL</ribosome-details>
         </complex_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <rna macromolecule_id="1">
            <name synonym="tRNA">transfer RNA</name>
            <natural_source database="NCBI">
               <organism ncbi="9986">Oryctolagus cuniculus</organism>
               <synonym_organism>Rabbit</synonym_organism>
            </natural_source>
            <molecular_weight>
               <theoretical units="MDa">0.025</theoretical>
            </molecular_weight>
            <details>tRNAPhe</details>
            <classification>TRANSFER</classification>
            <structure>DOUBLE HELIX</structure>
            <synthetic_flag>false</synthetic_flag>
         </rna>
         <rna macromolecule_id="2">
            <name synonym="mRNA">messenger RNA</name>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <strain>XL1-blue</strain>
            </natural_source>
            <molecular_weight>
               <theoretical units="MDa">0.0141</theoretical>
            </molecular_weight>
            <sequence>
               <string>GGGAAAAGAAAAGAAAAGAAAAUGUUCAAAGAAAAGAAAAGAAAU</string>
            </sequence>
            <classification>OTHER</classification>
            <structure>SINGLE STRANDED</structure>
            <synthetic_flag>true</synthetic_flag>
         </rna>
         <rna macromolecule_id="3">
            <name synonym="tRNA">transfer RNA</name>
            <natural_source database="NCBI">
               <organism ncbi="9913">Bos taurus</organism>
               <synonym_organism>Bovine</synonym_organism>
            </natural_source>
            <molecular_weight>
               <theoretical units="MDa">0.025</theoretical>
            </molecular_weight>
            <details>tRNALys, isoacceptor 3</details>
            <sequence>
               <string>GCCCGGAUAGCUCAGUCGGUAGAGCAUCAGACUUUUUAUCUGAGGGUCCAGGGUUCAGUCCCUGUUCGGGCGCCA</string>
            </sequence>
            <classification>TRANSFER</classification>
            <structure>DOUBLE HELIX</structure>
            <synthetic_flag>false</synthetic_flag>
         </rna>
      </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">1.38</concentration>
               <buffer>
                  <ph>7.5</ph>
                  <details>20mM Hepes-KOH, 5mM MgCl2,100 mM NH4Cl, 6 mM beta-mercaptoethanol, 0.8 mM spermidine, 0.6 mM spermine</details>
               </buffer>
               <grid>
                  <details>Quantifoil grids with additional continuous carbon support.</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">80</chamber_humidity>
                  <instrument>FEI VITROBOT MARK II</instrument>
                  <method>blot for 2/4 seconds before plunging</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI POLARA 300</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_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>39000.0</nominal_magnification>
               <calibrated_magnification>65520.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_min units="K">77</temperature_min>
               </temperature>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>Objective lens astigmatism was corrected at 200,000 times magnification</astigmatism>
                  </legacy>
               </alignment_procedure>
               <details>minimal dose system</details>
               <date>2008-06-02</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                     <digitization_details>
                        <scanner>OTHER</scanner>
                     </digitization_details>
                     <number_real_images>826</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                     <bits_per_pixel>16.</bits_per_pixel>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>Nitrogen cooled</specimen_holder>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>The particles were selected using SIGNATURE and processed by using SPIDER and SPARX.</details>
            <ctf_correction>
               <details>defocus group</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">6.9</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>Spider, Sparx</name>
                  </software>
               </software_list>
               <number_images_used>236113</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="182251">
      <file>emd_2620.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>360</col>
         <row>360</row>
         <sec>360</sec>
      </dimensions>
      <origin>
         <col>180</col>
         <row>180</row>
         <sec>180</sec>
      </origin>
      <spacing>
         <x>360</x>
         <y>360</y>
         <z>360</z>
      </spacing>
      <cell>
         <a units="&#8491;">453.6</a>
         <b units="&#8491;">453.6</b>
         <c units="&#8491;">453.6</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>-4.78745747</minimum>
         <maximum>14.351717949999999</maximum>
         <average>0.19541016</average>
         <std>0.95763493</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.26</x>
         <y units="&#8491;">1.26</y>
         <z units="&#8491;">1.26</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>3.5</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>reconstruction of post-translocational 80S state</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2620::::</details>
   </map>
</emd>