<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2341" 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>2013-03-27</deposition>
         <header_release>2013-04-10</header_release>
         <map_release>2013-04-10</map_release>
         <update>2013-04-10</update>
      </key_dates>
      <title>Bacteriophage phi6 procapsids with different composition of accessory proteins</title>
      <authors_list>
         <author>Nemecek D</author>
         <author>Qiao J</author>
         <author>Mindich L</author>
         <author>Steven AC</author>
         <author>Heymann JB</author>
      </authors_list>
      <keywords>dsRNA virus, Cystoviridae, phi6 procapsid, RNA polymerase, P7 subunit, location, occupancy</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Nemecek D</author>
               <author order="2">Qiao J</author>
               <author order="3">Mindich L</author>
               <author order="4">Steven AC</author>
               <author order="5">Heymann JB</author>
               <title>Packaging accessory protein P7 and polymerase P2 have mutually occluding binding sites inside the bacteriophage 6 procapsid.</title>
               <journal>J.VIROL.</journal>
               <volume>86</volume>
               <first_page>11616</first_page>
               <last_page>11624</last_page>
               <year>2012</year>
               <external_references type="PUBMED">22896624</external_references>
               <external_references type="DOI">doi:10.1128/JVI.01347-12</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Wildtype bacteriophage phi6 procapsid</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Wildtype bacteriophage phi6 procapsid</name>
            <oligomeric_state>icosahedral shell with acessory proteins</oligomeric_state>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <theoretical units="MDa">12.6</theoretical>
            </molecular_weight>
         </sample_supramolecule>
         <virus_supramolecule supramolecule_id="1">
            <name synonym="bacteriophage phi6">Pseudomonas phage phi6</name>
            <sci_species_name ncbi="10879">Pseudomonas phage phi6</sci_species_name>
            <natural_host database="NCBI">
               <organism ncbi="317">Pseudomonas syringae</organism>
               <synonym_organism>BACTERIA(EUBACTERIA)</synonym_organism>
            </natural_host>
            <host_system database="NCBI">
               <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
               <recombinant_strain>phi6</recombinant_strain>
               <recombinant_cell>JM109</recombinant_cell>
               <recombinant_plasmid>pLM687</recombinant_plasmid>
            </host_system>
            <molecular_weight>
               <theoretical units="MDa">12.6</theoretical>
            </molecular_weight>
            <virus_shell shell_id="1">
               <diameter units="&#8491;">450</diameter>
               <triangulation>2</triangulation>
            </virus_shell>
            <virus_type>VIRION</virus_type>
            <virus_isolate>SPECIES</virus_isolate>
            <virus_enveloped>false</virus_enveloped>
            <virus_empty>true</virus_empty>
            <syn_species_name>bacteriophage phi6</syn_species_name>
         </virus_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">
               <concentration units="mg/mL">10</concentration>
               <buffer>
                  <ph>8.0</ph>
                  <details>10mM Tris, 5mM MgCl2</details>
               </buffer>
               <grid>
                  <details>Q-foil 2/2/300 mesh copper grid</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">80</chamber_humidity>
                  <chamber_temperature units="K">120</chamber_temperature>
                  <instrument>FEI VITROBOT MARK I</instrument>
                  <method>Blot for 2s before plunging</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI/PHILIPS CM200FEG</microscope>
               <illumination_mode>FLOOD BEAM</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>FIELD EMISSION GUN</electron_source>
               <acceleration_voltage units="kV">120</acceleration_voltage>
               <nominal_defocus_min units="&#181;m">0.65</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">3.05</nominal_defocus_max>
               <nominal_magnification>38000.0</nominal_magnification>
               <calibrated_magnification>38800.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <date>2011-02-20</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                     <digitization_details>
                        <scanner>NIKON SUPER COOLSCAN 9000</scanner>
                        <sampling_interval units="&#181;m">6.35</sampling_interval>
                     </digitization_details>
                     <number_real_images>112</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">15</average_electron_dose_per_image>
                     <details>scanning at 4000 dpi</details>
                     <bits_per_pixel>16.</bits_per_pixel>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>The particles were selected manually, CTF was estimated from whole micrographs</details>
            <ctf_correction>
               <details>CTF was determined from whole micrographs</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>I</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">8.1</resolution>
               <resolution_method>FSC 0.33 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>Bsoft</name>
                  </software>
               </software_list>
               <number_images_used>6839</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="250001">
      <file>emd_2341.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>400</col>
         <row>400</row>
         <sec>400</sec>
      </dimensions>
      <origin>
         <col>-200</col>
         <row>-200</row>
         <sec>-200</sec>
      </origin>
      <spacing>
         <x>400</x>
         <y>400</y>
         <z>400</z>
      </spacing>
      <cell>
         <a units="&#8491;">652.0</a>
         <b units="&#8491;">652.0</b>
         <c units="&#8491;">652.0</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>-5.6837678</minimum>
         <maximum>9.26761436</maximum>
         <average>0.0</average>
         <std>1.0</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.63</x>
         <y units="&#8491;">1.63</y>
         <z units="&#8491;">1.63</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>2.0</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>wildtype phi6 procapsid composed of P1, P2, P4 and P7 subunits</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2341::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2341.png</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>