<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2057" 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>2012-03-21</deposition>
         <header_release>2012-03-22</header_release>
         <map_release>2013-04-03</map_release>
         <update>2013-07-24</update>
      </key_dates>
      <title>Cryo-EM structure of HBV T=4 empty Cp183 capsid</title>
      <authors_list>
         <author>Wang JC-Y</author>
         <author>Dhasan RS</author>
         <author>Zlotnick A</author>
      </authors_list>
      <keywords>HBV, Cp183</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Wang JC</author>
               <author order="2">Dhason MS</author>
               <author order="3">Zlotnick A</author>
               <title>Structural organization of pregenomic RNA and the carboxy-terminal domain of the capsid protein of hepatitis B virus.</title>
               <journal>PLOS PATHOG.</journal>
               <volume>8</volume>
               <first_page>e1002919</first_page>
               <last_page>e1002919</last_page>
               <year>2012</year>
               <external_references type="PUBMED">23028319</external_references>
               <external_references type="DOI">doi:10.1371/journal.ppat.1002919</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>HBV T=4 empty Cp183 capsid</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>HBV T=4 empty Cp183 capsid</name>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">5</experimental>
               <theoretical units="MDa">5</theoretical>
            </molecular_weight>
         </sample_supramolecule>
         <virus_supramolecule supramolecule_id="1">
            <name synonym="HBV Cp183">Hepatitis B virus</name>
            <details>Reassembled HBV T=4 empty Cp183 capsid (from E. coli)</details>
            <sci_species_name ncbi="10407">Hepatitis B virus</sci_species_name>
            <natural_host database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>VERTEBRATES</synonym_organism>
            </natural_host>
            <host_system database="NCBI">
               </host_system>
            <molecular_weight>
               <experimental units="MDa">5</experimental>
               <theoretical units="MDa">5</theoretical>
            </molecular_weight>
            <virus_shell shell_id="1">
               <name>Cp183</name>
               <triangulation>4</triangulation>
            </virus_shell>
            <virus_type>VIRUS-LIKE PARTICLE</virus_type>
            <virus_isolate>STRAIN</virus_isolate>
            <virus_enveloped>true</virus_enveloped>
            <virus_empty>true</virus_empty>
            <syn_species_name>HBV Cp183</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">0.24</concentration>
               <buffer>
                  <ph>7.5</ph>
                  <details>250 mM NaCl, 50 mM HEPES, 2 mM DTT</details>
               </buffer>
               <grid>
                  <details>Quantifoil R 2/2 holey carbon 200 mesh copper grids</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">100</chamber_humidity>
                  <chamber_temperature units="K">93</chamber_temperature>
                  <instrument>FEI VITROBOT MARK III</instrument>
                  <method>Blot for 4 seconds before plunging</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>JEOL 3200FS</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">1.1</nominal_cs>
               <nominal_defocus_min units="&#181;m">0.16</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">4.1</nominal_defocus_max>
               <nominal_magnification>80000.0</nominal_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_average units="K">97</temperature_average>
               </temperature>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>objective lens astigmatism was corrected at 80,000 times magnification</astigmatism>
                  </legacy>
               </alignment_procedure>
               <specialist_optics>
                  <energy_filter>
                     <name>Omega filter</name>
                  </energy_filter>
               </specialist_optics>
               <date>2010-12-17</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                     <number_real_images>594</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">14</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>Side entry liquid nitrogen-cooled cryo specimen holder</specimen_holder>
            </single_particle_microscopy>
            <single_particle_microscopy microscopy_id="2">
               <microscope>JEOL 3200FS</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">1.1</nominal_cs>
               <nominal_defocus_min units="&#181;m">0.16</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">4.1</nominal_defocus_max>
               <nominal_magnification>80000.0</nominal_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_average units="K">97</temperature_average>
               </temperature>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>objective lens astigmatism was corrected at 80,000 times magnification</astigmatism>
                  </legacy>
               </alignment_procedure>
               <specialist_optics>
                  <energy_filter>
                     <name>Omega filter</name>
                  </energy_filter>
               </specialist_optics>
               <date>2011-02-15</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                     <number_real_images>594</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">14</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>Side entry liquid nitrogen-cooled cryo specimen holder</specimen_holder>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <ctf_correction>
               <details>Each particle phase-flipping</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>I</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">5.5</resolution>
               <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>Auto3dem</name>
                  </software>
               </software_list>
               <number_images_used>27489</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
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      <file>emd_2057.map.gz</file>
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      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
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         <row>301</row>
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         <row>-150</row>
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         <a units="&#8491;">446.5636</a>
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         <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>-1.36718047</minimum>
         <maximum>3.30588698</maximum>
         <average>0.05598457</average>
         <std>0.37999234</std>
      </statistics>
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      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.6</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of HBV T=4 empty Cp183 capsid</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2057::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2057.jpg</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>