<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-1272" 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>2006-10-04</deposition>
         <header_release>2006-10-04</header_release>
         <map_release>2006-10-04</map_release>
         <update>2012-10-31</update>
      </key_dates>
      <title>Cryoelectron microscopy of protein IX-modified adenoviruses suggests a new position for the C terminus of protein IX.</title>
      <authors_list>
         <author>Marsh MP</author>
         <author>Campos SK</author>
         <author>Baker ML</author>
         <author>Chen CY</author>
         <author>Chiu W</author>
         <author>Barry MA</author>
      </authors_list>
      <keywords>
         </keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Marsh MP</author>
               <author order="2">Campos SK</author>
               <author order="3">Baker ML</author>
               <author order="4">Chen CY</author>
               <author order="5">Chiu W</author>
               <author order="6">Barry MA</author>
               <title>Cryoelectron microscopy of protein IX-modified adenoviruses suggests a new position for the C terminus of protein IX.</title>
               <journal>J.VIROL.</journal>
               <volume>80</volume>
               <first_page>11881</first_page>
               <last_page>11886</last_page>
               <year>2006</year>
               <external_references type="PUBMED">16987967</external_references>
               <external_references type="DOI">doi:10.1128/JVI.01471-06</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Adenovirus capsid with GFP fused to C-terminus            of
      capisd       protein pIX</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Adenovirus capsid with GFP fused to C-terminus            of
      capisd       protein pIX</name>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <theoretical units="MDa">150</theoretical>
            </molecular_weight>
         </sample_supramolecule>
         <virus_supramolecule supramolecule_id="1">
            <name synonym="Adenovirus, Ad-IX-GFP">Human adenovirus 5</name>
            <details>GFP fusion to protein pIX</details>
            <sci_species_name ncbi="28285">Human adenovirus 5</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">150</experimental>
            </molecular_weight>
            <virus_shell shell_id="1">
               <name>capsid</name>
               <diameter units="&#8491;">920</diameter>
               <triangulation>25</triangulation>
            </virus_shell>
            <virus_type>VIRION</virus_type>
            <virus_isolate>SEROTYPE</virus_isolate>
            <virus_enveloped>false</virus_enveloped>
            <virus_empty>false</virus_empty>
            <syn_species_name>Adenovirus, Ad-IX-GFP</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>7.2</ph>
                  <details>Phosphate-buffered Saline (PBS)</details>
               </buffer>
               <grid>
                  <details>200 mesh copper grid</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">100</chamber_humidity>
                  <chamber_temperature units="K">77</chamber_temperature>
                  <instrument>OTHER</instrument>
                  <details>Vitrification instrument: Vitrobot</details>
                  <method>Blotted twice for one second each.</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>JEOL 2010F</microscope>
               <illumination_mode>FLOOD BEAM</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>FIELD EMISSION GUN</electron_source>
               <acceleration_voltage units="kV">200</acceleration_voltage>
               <nominal_cs units="mm">2.0</nominal_cs>
               <nominal_defocus_min units="&#181;m">0.5</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">18.0</nominal_defocus_max>
               <nominal_magnification>50000.0</nominal_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_min units="K">77</temperature_min>
               </temperature>
               <date>2004-12-17</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                     <digitization_details>
                        <sampling_interval units="&#181;m">2.17</sampling_interval>
                     </digitization_details>
                     <number_real_images>100</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">15</average_electron_dose_per_image>
                     <bits_per_pixel>16.</bits_per_pixel>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>Side entry liquid nitrogen-cooled cryo specimen
        holder.This holder operates in the temperature range from 77K to ambient.</specimen_holder>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <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;">22.0</resolution>
               <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>SAVR</name>
                  </software>
               </software_list>
               <number_images_used>800</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="63602">
      <file>emd_1272.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>319</col>
         <row>319</row>
         <sec>160</sec>
      </dimensions>
      <origin>
         <col>-159</col>
         <row>-159</row>
         <sec>-80</sec>
      </origin>
      <spacing>
         <x>319</x>
         <y>319</y>
         <z>160</z>
      </spacing>
      <cell>
         <a units="&#8491;">1380.12</a>
         <b units="&#8491;">1380.12</b>
         <c units="&#8491;">690.06</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>-4.145</minimum>
         <maximum>5.91242</maximum>
         <average>0.0000000030212</average>
         <std>1.0</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">4.34</x>
         <y units="&#8491;">4.34</y>
         <z units="&#8491;">4.34</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>2.25</level>
         </contour>
      </contour_list>
      <annotation_details>This is the reconstruction of Ad-IX-GFP capsids.
      The data were collected at 2.17 angstrom per pixel and downsampled
      by 2 for processing.  The final reconstruction was guassian
      lowpass filtered to 22 angstroms.  The map deposited here is
      oriented with the 3-fold axis along z.  This map is a half-map.</annotation_details>
      <details>::::EMDATABANK.org::::EMD-1272::::</details>
   </map>
</emd>