<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2136" 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>2012-06-12</deposition>
         <header_release>2012-07-25</header_release>
         <map_release>2012-08-01</map_release>
         <update>2012-08-29</update>
      </key_dates>
      <title>Negative stain EM composite structure (part 1) of the type IV secretion system subcomplex VirB4-VirB7-VirB9-VirB10</title>
      <authors_list>
         <author>Williams R</author>
         <author>Wallden K</author>
         <author>Yan J</author>
         <author>Lian PW</author>
         <author>Wang L</author>
         <author>Thalassinos K</author>
         <author>Orlova EV</author>
         <author>Waksman G</author>
      </authors_list>
      <keywords>
         </keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Wallden K</author>
               <author order="2">Williams R</author>
               <author order="3">Yan J</author>
               <author order="4">Lian PW</author>
               <author order="5">Wang L</author>
               <author order="6">Thalassinos K</author>
               <author order="7">Orlova EV</author>
               <author order="8">Waksman G</author>
               <title>Structure of the VirB4 ATPase, alone and bound to the core complex of a type IV secretion system.</title>
               <journal>PROC.NAT.ACAD.SCI.USA</journal>
               <volume>109</volume>
               <first_page>11348</first_page>
               <last_page>11353</last_page>
               <year>2012</year>
               <external_references type="PUBMED">22745169</external_references>
               <external_references type="DOI">doi:10.1073/pnas.1201428109</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <emdb_list>
         <emdb_reference>
            <emdb_id>EMD-2137</emdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </emdb_reference>
      </emdb_list>
   </crossreferences>
   <sample>
      <name>TraB/TraN/TraO/TraF complex encoded by pKM101</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>TraB/TraN/TraO/TraF complex encoded by pKM101</name>
            <oligomeric_state>14-mer of core complex (TraN/TraO/TraF) and monomer of TraB</oligomeric_state>
            <number_unique_components>4</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">1.15</experimental>
               <theoretical units="MDa">1.15</theoretical>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="VirB4">TraB</name>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <strain>pKM101 plasmid</strain>
               <cellular_location>cell envelope</cellular_location>
            </natural_source>
            <details>The 1.05 MDa core complex (TraN/TraO/TraF) with TraB bound, see EMD-2137</details>
            <number_of_copies>1</number_of_copies>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
               <recombinant_plasmid>pASK IBA3C</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="2">
            <name synonym="VirB7">TraN</name>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <strain>pKM101 plasmid</strain>
               <cellular_location>cell envelope</cellular_location>
            </natural_source>
            <details>The 1.05 MDa core complex (TraN/TraO/TraF) with TraB bound, see EMD-2137</details>
            <number_of_copies>14</number_of_copies>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
               <recombinant_plasmid>pASK IBA3C</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="3">
            <name synonym="VirB9">TraO</name>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <strain>pKM101 plasmid</strain>
               <cellular_location>cell envelope</cellular_location>
            </natural_source>
            <details>The 1.05 MDa core complex (TraN/TraO/TraF) with TraB bound, see EMD-2137</details>
            <number_of_copies>14</number_of_copies>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
               <recombinant_plasmid>pASK IBA3C</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="4">
            <name synonym="VirB10">TraF</name>
            <natural_source database="NCBI">
               <organism ncbi="562">Escherichia coli</organism>
               <strain>pKM101 plasmid</strain>
               <cellular_location>cell envelope</cellular_location>
            </natural_source>
            <details>The 1.05 MDa core complex (TraN/TraO/TraF) with TraB bound, see EMD-2137</details>
            <number_of_copies>14</number_of_copies>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
               <recombinant_plasmid>pASK IBA3C</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">
               <staining>
                  <type>NEGATIVE</type>
                  <details>NanoW</details>
               </staining>
               <grid>
                  <details>Glow-discharged continuous carbon</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 12</microscope>
               <illumination_mode>SPOT SCAN</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>OTHER</electron_source>
               <acceleration_voltage units="kV">120</acceleration_voltage>
               <nominal_defocus_min units="&#181;m">0.7</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">2.0</nominal_defocus_max>
               <nominal_magnification>42000.0</nominal_magnification>
               <specimen_holder_model>SIDE ENTRY, EUCENTRIC</specimen_holder_model>
               <date>2009-12-22</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="FILM">GENERIC FILM</film_or_detector_model>
                     <digitization_details>
                        <scanner>ZEISS SCAI</scanner>
                        <sampling_interval units="&#181;m">7</sampling_interval>
                     </digitization_details>
                     <number_real_images>12</number_real_images>
                     <bits_per_pixel>8.</bits_per_pixel>
                  </image_recording>
               </image_recording_list>
               <tilt_angle_min>0</tilt_angle_min>
               <tilt_angle_max>0</tilt_angle_max>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</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>IMAGIC</name>
                  </software>
               </software_list>
               <details>This map is part of a composite structure of two maps.</details>
               <number_images_used>10000</number_images_used>
            </final_reconstruction>
            <final_two_d_classification>
               <number_classes>330</number_classes>
            </final_two_d_classification>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="61037">
      <file>emd_2136.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>250</col>
         <row>250</row>
         <sec>250</sec>
      </dimensions>
      <origin>
         <col>-125</col>
         <row>-125</row>
         <sec>-125</sec>
      </origin>
      <spacing>
         <x>250</x>
         <y>250</y>
         <z>250</z>
      </spacing>
      <cell>
         <a units="&#8491;">417.5</a>
         <b units="&#8491;">417.5</b>
         <c units="&#8491;">417.5</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>-1.48925638</minimum>
         <maximum>1.98086631</maximum>
         <average>0.0111697</average>
         <std>0.09054922</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.67</x>
         <y units="&#8491;">1.67</y>
         <z units="&#8491;">1.67</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.35</level>
            <source>EMDB</source>
         </contour>
      </contour_list>
      <annotation_details>Core complex part of the VirB4-core complex composite reconstruction</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2136::::</details>
   </map>
</emd>