<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2755" 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>2014-08-13</deposition>
         <header_release>2014-09-10</header_release>
         <map_release>2014-10-22</map_release>
         <update>2014-10-22</update>
      </key_dates>
      <title>Cryo-electron microscopy of TibC dodecamer</title>
      <authors_list>
         <author>Yao Q</author>
         <author>Lu QH</author>
         <author>Wan XB</author>
         <author>Song F</author>
         <author>Xu Y</author>
         <author>Zamyatina A</author>
         <author>Huang N</author>
         <author>Zhu P</author>
         <author>Shao F</author>
      </authors_list>
      <keywords>Bacterial autotransporters, Glycosyltransferase, Bacterial pathogenesis, Cryo-EM, Enzyme complex,</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Yao Q</author>
               <author order="2">Lu QH</author>
               <author order="3">Wan XB</author>
               <author order="4">Song F</author>
               <author order="5">Xu Y</author>
               <author order="6">Hu M</author>
               <author order="7">Zamyatina A</author>
               <author order="8">Liu X</author>
               <author order="9">Huang N</author>
               <author order="10">Zhu P</author>
               <author order="11">Shao F</author>
               <title>A structural mechanism for bacterial autotransporter glycosylation by a dodecameric heptosyltransferase family</title>
               <journal>eLife</journal>
               <volume>3</volume>
               <year>2014</year>
               <external_references type="PUBMED">25310236</external_references>
               <external_references type="DOI">doi:10.7554/eLife.03714</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Complex of TibC</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Complex of TibC</name>
            <oligomeric_state>TibC forms a dodecamer of six dimers</oligomeric_state>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <theoretical units="MDa">0.555</theoretical>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name>TibC</name>
            <natural_source database="NCBI">
               <organism ncbi="316401">Escherichia coli ETEC H10407</organism>
            </natural_source>
            <molecular_weight>
               <theoretical units="MDa">0.046</theoretical>
            </molecular_weight>
            <details>Ferric ions were attached to specific cysteine residues</details>
            <number_of_copies>12</number_of_copies>
            <oligomeric_state>Dodecamer</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="469008">Escherichia coli BL21(DE3)</recombinant_organism>
               <recombinant_strain>Gold</recombinant_strain>
               <recombinant_plasmid>pGEX-6p-2</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               </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">
               <concentration units="mg/mL">1</concentration>
               <buffer>
                  <ph>7.6</ph>
                  <details>10mM Tris-HCl, 100mM NaCl, 2mM DTT</details>
               </buffer>
               <grid>
                  <details>Quantifoil R2.1, 300 mesh</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">100</chamber_humidity>
                  <instrument>FEI VITROBOT MARK IV</instrument>
                  <method>10 ug/ml bacitracin (Sigma) was added to the purified protein to obtain monodispersed particles and make the orientation distribution more anisotropic. Blot for 4 sec using blotting force 2 before plunging.</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI TITAN KRIOS</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">2.7</nominal_cs>
               <nominal_magnification>75000.0</nominal_magnification>
               <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>Objective lens astigmatism was corrected at 155,000 times magnification</astigmatism>
                  </legacy>
               </alignment_procedure>
               <date>2012-10-11</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>3000</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">18</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <ctf_correction>
               <details>CTF correction of each particle</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C6</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">11.5</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>EMAN2</name>
                  </software>
               </software_list>
               <number_images_used>8546</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="54001">
      <file>emd_2755.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>240</col>
         <row>240</row>
         <sec>240</sec>
      </dimensions>
      <origin>
         <col>-120</col>
         <row>-120</row>
         <sec>-120</sec>
      </origin>
      <spacing>
         <x>240</x>
         <y>240</y>
         <z>240</z>
      </spacing>
      <cell>
         <a units="&#8491;">287.04</a>
         <b units="&#8491;">287.04</b>
         <c units="&#8491;">287.04</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>-3.6064837</minimum>
         <maximum>12.166548730000001</maximum>
         <average>0.0</average>
         <std>1.0</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.196</x>
         <y units="&#8491;">1.196</y>
         <z units="&#8491;">1.196</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>5.7</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of TibC dodecamer</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2755::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2755.png</file>
         </figure>
         <figure>
            <file>emd_2755_1.png</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>