<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2486" 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>2013-10-15</deposition>
         <header_release>2013-10-30</header_release>
         <map_release>2014-10-29</map_release>
         <update>2014-10-29</update>
      </key_dates>
      <title>Electron microscopy of negatively-stained p9 tail protein from bacillus phi29 bacteriophage</title>
      <authors_list>
         <author>Cuervo A</author>
         <author>Chagoyen M</author>
         <author>Pulido-Cid M</author>
         <author>Camacho A</author>
         <author>Carrascosa JL</author>
      </authors_list>
      <keywords>Bacteriophage, Tail protein</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="false">
               <author order="1">Cuervo A</author>
               <author order="2">Chagoyen M</author>
               <author order="3">Pulido-Cid M</author>
               <author order="4">Camacho A</author>
               <author order="5">Carrascosa JL</author>
               <title>Structural characterization of T7 tail machinery reveals a conserved tubular structure among other members of the Podoviridae family suggesting a common mechanism for DNA delivery</title>
               <journal>To Be Published</journal>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>p9 protein from phi29 bacteriophage</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>p9 protein from phi29 bacteriophage</name>
            <oligomeric_state>hexamer</oligomeric_state>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <theoretical units="MDa">0.402</theoretical>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name>p9</name>
            <natural_source database="NCBI">
               <organism ncbi="10756">Bacillus phage phi29</organism>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.067</experimental>
               <theoretical units="MDa">0.067</theoretical>
            </molecular_weight>
            <details>The protein was cloned with an His-tag</details>
            <number_of_copies>6</number_of_copies>
            <oligomeric_state>hexamer</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
               <recombinant_strain>Top10</recombinant_strain>
               <recombinant_plasmid>pBAD/His B</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">B3VMP5</external_references>
            </sequence>
         </protein_or_peptide>
      </macromolecule_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>7.8</ph>
                  <details>50 mM Tris-HCl, 100mM NaCl and 10 mM MgCl2</details>
               </buffer>
               <staining>
                  <type>NEGATIVE</type>
                  <details>GraFix-fixated proteins stained on 2% w/v uranyl acetate for 1 min.</details>
               </staining>
               <grid>
                  <details>400 mesh cupper grid coated with a carbon layer, glow discharged</details>
               </grid>
               <vitrification>
                  <cryogen_name>NONE</cryogen_name>
                  <instrument>OTHER</instrument>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI TECNAI F20</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">2.26</nominal_cs>
               <nominal_defocus_min units="&#181;m">1.5</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">3.5</nominal_defocus_max>
               <nominal_magnification>108696.0</nominal_magnification>
               <specimen_holder_model>PHILIPS ROTATION HOLDER</specimen_holder_model>
               <date>2012-01-25</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">FEI EAGLE (4k x 4k)</film_or_detector_model>
                     <number_real_images>100</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">10</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
            </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>C6</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">20.0</resolution>
               <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>EMAN, Xmipp</name>
                  </software>
               </software_list>
               <number_images_used>4362</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="845">
      <file>emd_2486.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>60</col>
         <row>60</row>
         <sec>60</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>60</x>
         <y>60</y>
         <z>60</z>
      </spacing>
      <cell>
         <a units="&#8491;">248.4</a>
         <b units="&#8491;">248.4</b>
         <c units="&#8491;">248.4</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>-0.00461828</minimum>
         <maximum>0.09322559</maximum>
         <average>0.00154414</average>
         <std>0.00842365</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">4.14</x>
         <y units="&#8491;">4.14</y>
         <z units="&#8491;">4.14</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.018061</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of bacteriophage phi29 tail protein</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2486::::</details>
   </map>
</emd>