<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2365" 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>2013-04-18</deposition>
         <header_release>2013-04-24</header_release>
         <map_release>2013-07-17</map_release>
         <update>2013-09-04</update>
      </key_dates>
      <title>Asymmetric structure of a virus-receptor complex</title>
      <authors_list>
         <author>Dent KC</author>
         <author>Thompson R</author>
         <author>Barker AM</author>
         <author>Barr JN</author>
         <author>Hiscox JA</author>
         <author>Stockley PG</author>
         <author>Ranson NA</author>
      </authors_list>
      <keywords>virus, receptor, complex, asymmetric, bacteriophage</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Dent KC</author>
               <author order="2">Thompson R</author>
               <author order="3">Barker AM</author>
               <author order="4">Hiscox JA</author>
               <author order="5">Barr JN</author>
               <author order="6">Stockley PG</author>
               <author order="7">Ranson NA</author>
               <title>The asymmetric structure of an icosahedral virus bound to its receptor suggests a mechanism for genome release.</title>
               <journal>STRUCTURE</journal>
               <volume>21</volume>
               <first_page>1225</first_page>
               <last_page>1234</last_page>
               <year>2013</year>
               <external_references type="PUBMED">23810697</external_references>
               <external_references type="DOI">doi:10.1016/j.str.2013.05.012</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>4bp7</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>Bacteriophage MS2 bound to its receptor, the E. coli F-pilus</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Bacteriophage MS2 bound to its receptor, the E. coli F-pilus</name>
            <details>Sub-tomographic averaging of virus-decorated pili</details>
            <oligomeric_state>One T=3 icosahedral virus bound to a pilus fibre</oligomeric_state>
            <number_unique_components>2</number_unique_components>
         </sample_supramolecule>
         <virus_supramolecule supramolecule_id="1">
            <name>Enterobacterio phage MS2</name>
            <sci_species_name ncbi="12022">Enterobacterio phage MS2</sci_species_name>
            <natural_host database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <synonym_organism>BACTERIA(EUBACTERIA)</synonym_organism>
            </natural_host>
            <host_system database="NCBI">
               </host_system>
            <virus_shell shell_id="1">
               <diameter units="&#8491;">290</diameter>
               <triangulation>3</triangulation>
            </virus_shell>
            <virus_type>VIRION</virus_type>
            <virus_isolate>SPECIES</virus_isolate>
            <virus_enveloped>false</virus_enveloped>
            <virus_empty>false</virus_empty>
         </virus_supramolecule>
         <organelle_or_cellular_component_supramolecule supramolecule_id="2">
            <name>F-Pilus</name>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
            </natural_source>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
         </organelle_or_cellular_component_supramolecule>
      </supramolecule_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">
               <grid>
                  <details>200 mesh lacey carbon grids, glow discharged in air.</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <instrument>HOMEMADE PLUNGER</instrument>
               </vitrification>
            </subtomogram_averaging_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <subtomogram_averaging_microscopy microscopy_id="1">
               <microscope>FEI TECNAI 12</microscope>
               <illumination_mode>FLOOD BEAM</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>LAB6</electron_source>
               <acceleration_voltage units="kV">120</acceleration_voltage>
               <nominal_defocus_min units="&#181;m">3.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">3.0</nominal_defocus_max>
               <nominal_magnification>23000.0</nominal_magnification>
               <calibrated_magnification>23000.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <date>2012-01-01</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 1000 (2k x 2k)</film_or_detector_model>
                  </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">
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">39.0</resolution>
               <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>IMOD, PEET</name>
                  </software>
               </software_list>
               <number_subtomograms_used>1000</number_subtomograms_used>
            </final_reconstruction>
         </subtomogram_averaging_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="1025">
      <file>emd_2365.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>64</col>
         <row>64</row>
         <sec>64</sec>
      </dimensions>
      <origin>
         <col>-32</col>
         <row>-32</row>
         <sec>-32</sec>
      </origin>
      <spacing>
         <x>64</x>
         <y>64</y>
         <z>64</z>
      </spacing>
      <cell>
         <a units="&#8491;">583.68</a>
         <b units="&#8491;">583.68</b>
         <c units="&#8491;">583.68</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>-3.95017767</minimum>
         <maximum>7.49030733</maximum>
         <average>0.00000759</average>
         <std>1.0</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">9.12</x>
         <y units="&#8491;">9.12</y>
         <z units="&#8491;">9.12</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>1.45</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Sub-tomogram average of bacteriophage MS2 bound to its receptor</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2365::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>2MS2</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
               <chain>
                  <chain_id>B</chain_id>
               </chain>
               <chain>
                  <chain_id>C</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
      <figure_list>
         <figure>
            <file>emd_2365.png</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>