<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-1533" 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>2008-07-02</deposition>
         <header_release>2008-07-03</header_release>
         <map_release>2009-04-30</map_release>
         <update>2013-08-28</update>
      </key_dates>
      <title>Three-dimensional structure of the Grass carp reovirus virion.</title>
      <authors_list>
         <author>Cheng L</author>
         <author>Fang Q</author>
         <author>Shah S</author>
         <author>Atanasov IC</author>
         <author>Zhou ZH</author>
      </authors_list>
      <keywords>Grass carp reovirus,aquareovirus,dsRNA virus,3D structure,reoviridae,cryo-electron microscopy</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Cheng L</author>
               <author order="2">Fang Q</author>
               <author order="3">Shah S</author>
               <author order="4">Atanasov IC</author>
               <author order="5">Zhou ZH</author>
               <title>Subnanometer-resolution structures of the grass carp reovirus core and virion.</title>
               <journal>J.MOL.BIOL.</journal>
               <volume>382</volume>
               <first_page>213</first_page>
               <last_page>222</last_page>
               <year>2008</year>
               <external_references type="PUBMED">18625243</external_references>
               <external_references type="DOI">doi:10.1016/j.jmb.2008.06.075</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Grass carp reovirus virion</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Grass carp reovirus virion</name>
            <number_unique_components>5</number_unique_components>
         </sample_supramolecule>
         <virus_supramolecule supramolecule_id="1">
            <name synonym="aquareovirus">Grass carp reovirus</name>
            <sci_species_name ncbi="128987">Grass carp reovirus</sci_species_name>
            <natural_host database="NCBI">
               <organism ncbi="7959">Ctenopharyngodon idella</organism>
               <synonym_organism>VERTEBRATES</synonym_organism>
            </natural_host>
            <host_system database="NCBI">
               </host_system>
            <virus_shell shell_id="1">
               <name>GCRV virion</name>
               <diameter units="&#8491;">880</diameter>
               <triangulation>13</triangulation>
            </virus_shell>
            <virus_type>VIRION</virus_type>
            <virus_isolate>STRAIN</virus_isolate>
            <virus_enveloped>false</virus_enveloped>
            <virus_empty>false</virus_empty>
            <syn_species_name>aquareovirus</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">2.5</concentration>
               <buffer>
                  <ph>7.5</ph>
                  <details>PBS, 137mM NaCL, 2.7mM KCl, 8.1mM Na2HP04, 1.5mM KH2PO4</details>
               </buffer>
               <grid>
                  <details>400 mesh</details>
               </grid>
               <vitrification>
                  <cryogen_name>NITROGEN</cryogen_name>
                  <instrument>OTHER</instrument>
                  <method>Blot for 1 seconds before plunging. The sample was quickly plunged into a bath of liquid ethane cooled by liquid nitrogen.</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI POLARA 300</microscope>
               <illumination_mode>SPOT SCAN</illumination_mode>
               <imaging_mode>DIFFRACTION</imaging_mode>
               <electron_source>FIELD EMISSION GUN</electron_source>
               <acceleration_voltage units="kV">300</acceleration_voltage>
               <nominal_cs units="mm">2.0</nominal_cs>
               <nominal_defocus_min units="&#181;m">0.8</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">1.2</nominal_defocus_max>
               <nominal_magnification>93000.0</nominal_magnification>
               <calibrated_magnification>161020.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GENERIC TVIPS (4k x 4k)</film_or_detector_model>
                     <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                     <bits_per_pixel>32.</bits_per_pixel>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>Eucentric</specimen_holder>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>The particles were selected using an automatic selection program and verified manually.</details>
            <ctf_correction>
               <details>Each micrograph</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>I</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">9.0</resolution>
               <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>IMIRS</name>
                  </software>
               </software_list>
               <number_images_used>2755</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="196800">
      <file>emd_1533.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>465</col>
         <row>465</row>
         <sec>233</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>465</x>
         <y>465</y>
         <z>233</z>
      </spacing>
      <cell>
         <a units="&#8491;">519.68</a>
         <b units="&#8491;">519.68</b>
         <c units="&#8491;">259.84</c>
         <alpha units="deg">90</alpha>
         <beta units="deg">90</beta>
         <gamma units="deg">90</gamma>
      </cell>
      <axis_order>
         <fast>X</fast>
         <medium>Y</medium>
         <slow>Z</slow>
      </axis_order>
      <statistics>
         <minimum>-9.1707</minimum>
         <maximum>11.256</maximum>
         <average>0.0666267</average>
         <std>1.39446</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.12</x>
         <y units="&#8491;">1.12</y>
         <z units="&#8491;">1.12</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>1.5</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Three-dimensional structure of the grass carp reovirus virion.</annotation_details>
      <details>::::EMDATABANK.org::::EMD-1533::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>1JMU</access_code>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>UCSF Chimera</name>
               </software>
            </software_list>
            <details>Protocol: Rigid Body. Automatically done by UCSF Chimera</details>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
   </interpretation>
</emd>