<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-1399" 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>2007-08-06</deposition>
         <header_release>2007-08-06</header_release>
         <map_release>2007-12-06</map_release>
         <update>2011-05-26</update>
      </key_dates>
      <title>Cryo-electron microscopy of hepatitis B virions reveals variability in envelope capsid interactions.</title>
      <authors_list>
         <author>Seitz S</author>
         <author>Urban S</author>
         <author>Antoni C</author>
         <author>Bottcher B</author>
      </authors_list>
      <keywords>
         </keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Seitz S</author>
               <author order="2">Urban S</author>
               <author order="3">Antoni C</author>
               <author order="4">Bottcher B</author>
               <title>Cryo-electron microscopy of hepatitis B virions reveals variability in envelope capsid interactions.</title>
               <journal>EMBO J.</journal>
               <volume>26</volume>
               <first_page>4160</first_page>
               <last_page>4167</last_page>
               <year>2007</year>
               <external_references type="PUBMED">17762862</external_references>
               <external_references type="DOI">doi:10.1038/sj.emboj.7601841</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Hepatitis B virus</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Hepatitis B virus</name>
            <details>virus purified from patients serum</details>
            <number_unique_components>1</number_unique_components>
         </sample_supramolecule>
         <virus_supramolecule supramolecule_id="1">
            <name synonym="HBV">Hepatitis B virus</name>
            <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>
            <virus_type>VIRION</virus_type>
            <virus_isolate>SPECIES</virus_isolate>
            <virus_enveloped>true</virus_enveloped>
            <virus_empty>false</virus_empty>
            <syn_species_name>HBV</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">
               <buffer>
                  <ph>7.4</ph>
               </buffer>
               <grid>
                  <details>400 mesh copper rhodium grids (Maxtaform),</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">90</chamber_humidity>
                  <chamber_temperature units="K">93</chamber_temperature>
                  <instrument>HOMEMADE PLUNGER</instrument>
                  <details>Vitrification instrument: self made</details>
                  <method>automatic blot for 1-2 seconds from both sides
        before plunging</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI/PHILIPS CM120T</microscope>
               <illumination_mode>FLOOD BEAM</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>LAB6</electron_source>
               <acceleration_voltage units="kV">100</acceleration_voltage>
               <nominal_cs units="mm">6.3</nominal_cs>
               <nominal_defocus_min units="&#181;m">0.9</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">2.6</nominal_defocus_max>
               <nominal_magnification>52000.0</nominal_magnification>
               <calibrated_magnification>50000.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_average units="K">178</temperature_average>
               </temperature>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>corrected at 200,000 times magnification</astigmatism>
                  </legacy>
               </alignment_procedure>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                     <digitization_details>
                        <scanner>ZEISS SCAI</scanner>
                        <sampling_interval units="&#181;m">21</sampling_interval>
                     </digitization_details>
                     <number_real_images>74</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">15</average_electron_dose_per_image>
                     <bits_per_pixel>8.</bits_per_pixel>
                  </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">
            <details>particles were selected manually</details>
            <ctf_correction>
               <details>Each Particle</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>I</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <software_list>
                  <software>
                     <name>MRC</name>
                  </software>
               </software_list>
               <number_images_used>15</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="978">
      <file>emd_1399.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>63</col>
         <row>63</row>
         <sec>63</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>63</x>
         <y>63</y>
         <z>63</z>
      </spacing>
      <cell>
         <a units="&#8491;">529.2</a>
         <b units="&#8491;">529.2</b>
         <c units="&#8491;">529.2</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>-63.503700000000002</minimum>
         <maximum>129.885999999999996</maximum>
         <average>0.0131066</average>
         <std>7.65082</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">8.4</x>
         <y units="&#8491;">8.4</y>
         <z units="&#8491;">8.4</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>13.0</level>
         </contour>
      </contour_list>
      <annotation_details>3d MAP OF SUB-SET OF HEPATITIS B VIRUS Particles
      (COMPACT PARTICLES; grouped in the same class)</annotation_details>
      <details>::::EMDATABANK.org::::EMD-1399::::</details>
   </map>
</emd>