<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2947" 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>2015-03-24</deposition>
         <header_release>2015-05-06</header_release>
         <map_release>2015-06-03</map_release>
         <update>2015-07-22</update>
      </key_dates>
      <title>Cryo-electron microscopy structure of the occupied population of CCT5 complexes (mutant huntington oligomer subtrate)</title>
      <authors_list>
         <author>Darrow MC</author>
         <author>Sergeeva OA</author>
         <author>Isas JM</author>
         <author>Galaz-Montoya J</author>
         <author>King JA</author>
         <author>Langen R</author>
         <author>Schmid MF</author>
         <author>Chiu W</author>
      </authors_list>
      <keywords>chaperonin, Huntington's disease, protein aggregation</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Darrow MC</author>
               <author order="2">Sergeeva OA</author>
               <author order="3">Isas JM</author>
               <author order="4">Galaz-Montoya J</author>
               <author order="5">King JA</author>
               <author order="6">Langen R</author>
               <author order="7">Schmid MF</author>
               <author order="8">Chiu W</author>
               <title>Structural Mechanisms of Mutant Huntingtin Aggregation Suppression by Synthetic Chaperonin-like CCT5 Complex Explained by Cryo-electron Tomography.</title>
               <journal>J.BIOL.CHEM.</journal>
               <volume>290</volume>
               <first_page>17451</first_page>
               <last_page>17461</last_page>
               <year>2015</year>
               <external_references type="PUBMED">25995452</external_references>
               <external_references type="DOI">doi:10.1074/jbc.M115.655373</external_references>
            </journal_citation>
         </primary_citation>
         <secondary_citation>
            <journal_citation published="true">
               <author order="1">Sergeeva OA</author>
               <author order="2">Chen B</author>
               <author order="3">Haase-Pettingel C</author>
               <author order="4">Ludtke SJ</author>
               <author order="5">Chiu W</author>
               <author order="6">King JA</author>
               <title>Human CCT4 and CCT5 chaperonin subunits expressed in Escherichia coli form biologically active homo-oligomers</title>
               <journal>J.BIOL.CHEM.</journal>
               <volume>288</volume>
               <first_page>17734</first_page>
               <last_page>17744</last_page>
               <year>2013</year>
               <external_references type="PUBMED">23612981</external_references>
               <external_references type="DOI">doi:10.1074/jbc.M112.443929</external_references>
            </journal_citation>
         </secondary_citation>
         <secondary_citation>
            <journal_citation published="true">
               <author order="1">Sergeeva OA</author>
               <author order="2">Tran MT</author>
               <author order="3">Haase-Pettingell C</author>
               <author order="4">King JA</author>
               <title>Biochemical characterization of mutants in chaperonin proteins CCT4 and CCT5 associated with hereditary sensory neuropathy</title>
               <journal>J.BIOL.CHEM.</journal>
               <volume>289</volume>
               <first_page>27470</first_page>
               <last_page>27480</last_page>
               <year>2014</year>
               <external_references type="PUBMED">25124038</external_references>
               <external_references type="DOI">doi:10.1074/jbc.M114.576033</external_references>
            </journal_citation>
         </secondary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>CCT5 complex with encapsulated oligomeric mutant huntingtin exon 1.</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>CCT5 complex with encapsulated oligomeric mutant huntingtin exon 1.</name>
            <oligomeric_state>16 CCT5 subunits make up one CCT5 complex, which encapsulates a hetergeneous mixture of mutant huntingtin oligomeric species.</oligomeric_state>
            <number_unique_components>2</number_unique_components>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="CCT5 Complex">chaperonin containing TCP1, subunit 5 (epsilon) complex</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>Human</synonym_organism>
               <cellular_location>cytoplasm</cellular_location>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">1.0</experimental>
               <theoretical units="MDa">0.96</theoretical>
            </molecular_weight>
            <oligomeric_state>Hexadecamer</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>RIL</recombinant_strain>
               <recombinant_plasmid>pET21b</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">P48643</external_references>
               <external_references type="GO">GO:0005832</external_references>
               <external_references type="GO">GO:0006457</external_references>
               <external_references type="INTERPRO">IPR002423</external_references>
            </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="2">
            <name synonym="mHttQ46-Ex1-His">mutant huntington exon 1</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>Human</synonym_organism>
               <tissue>Neurons and testes</tissue>
               <cellular_location>cytoplasm</cellular_location>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.0014</experimental>
               <theoretical units="MDa">0.00139</theoretical>
            </molecular_weight>
            <oligomeric_state>Heterogeneous</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
               <recombinant_cell>HEK293T</recombinant_cell>
               <recombinant_plasmid>pET32a-HD46Q</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">P42858</external_references>
               <external_references type="INTERPRO">IPR000091</external_references>
            </sequence>
         </protein_or_peptide>
      </macromolecule_list>
   </sample>
   <structure_determination_list>
      <structure_determination structure_determination_id="1">
         <method>subtomogramAveraging</method>
         <aggregation_state>particle</aggregation_state>
         <specimen_preparation_list>
            <subtomogram_averaging_preparation preparation_id="1">
               <concentration units="mg/mL">0.8</concentration>
               <buffer>
                  <ph>8.0</ph>
                  <details>20 mM Tris, 150 mM NaCl, 1 mM DTT, 1% glycerol</details>
               </buffer>
               <grid>
                  <details>200 mesh Quantifoil copper grid R 2/2 holey carbon support, glow discharged</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">85</chamber_humidity>
                  <chamber_temperature units="K">95</chamber_temperature>
                  <instrument>FEI VITROBOT MARK III</instrument>
                  <method>1x or 2x double sided blotting for 1 or 2 second each blot before plunging.</method>
               </vitrification>
            </subtomogram_averaging_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <subtomogram_averaging_microscopy microscopy_id="1">
               <microscope>JEOL 2200FS</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">5.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">5.0</nominal_defocus_max>
               <nominal_magnification>25000.0</nominal_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_average units="K">95</temperature_average>
               </temperature>
               <specialist_optics>
                  <energy_filter>
                     <name>Gatan</name>
                     <lower_energy_threshold units="eV">0.0</lower_energy_threshold>
                     <upper_energy_threshold units="eV">25.0</upper_energy_threshold>
                  </energy_filter>
               </specialist_optics>
               <date>2014-02-12</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                     <average_electron_dose_per_image units="e/&#8491;^2">2.0</average_electron_dose_per_image>
                     <detector_distance>1200</detector_distance>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>LN2 cooled</specimen_holder>
               <tilt_series>
                  <axis1>
                     <min_angle units="deg">-55</min_angle>
                     <max_angle units="deg">55</max_angle>
                  </axis1>
               </tilt_series>
            </subtomogram_averaging_microscopy>
            <subtomogram_averaging_microscopy microscopy_id="2">
               <microscope>JEOL 2200FS</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">5.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">5.0</nominal_defocus_max>
               <nominal_magnification>25000.0</nominal_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_average units="K">95</temperature_average>
               </temperature>
               <specialist_optics>
                  <energy_filter>
                     <name>Gatan</name>
                     <lower_energy_threshold units="eV">0.0</lower_energy_threshold>
                     <upper_energy_threshold units="eV">25.0</upper_energy_threshold>
                  </energy_filter>
               </specialist_optics>
               <date>2013-10-31</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                     <average_electron_dose_per_image units="e/&#8491;^2">2.0</average_electron_dose_per_image>
                     <detector_distance>1200</detector_distance>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>LN2 cooled</specimen_holder>
               <tilt_series>
                  <axis1>
                     <min_angle units="deg">-55</min_angle>
                     <max_angle units="deg">55</max_angle>
                  </axis1>
               </tilt_series>
            </subtomogram_averaging_microscopy>
         </microscopy_list>
         <subtomogram_averaging_processing image_processing_id="1">
            <details>Subvolumes were manually selected using IMOD for coordinates and EMAN2 for boxing. Further processing was completed in EMAN2.</details>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <software_list>
                  <software>
                     <name>IMOD</name>
                  </software>
               </software_list>
               <number_subtomograms_used>320</number_subtomograms_used>
            </final_reconstruction>
         </subtomogram_averaging_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="1459">
      <file>emd_2947.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>72</col>
         <row>72</row>
         <sec>72</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>72</x>
         <y>72</y>
         <z>72</z>
      </spacing>
      <cell>
         <a units="&#8491;">338.688</a>
         <b units="&#8491;">338.688</b>
         <c units="&#8491;">338.688</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>-0.16106577</minimum>
         <maximum>0.35770315</maximum>
         <average>0.00772435</average>
         <std>0.06003072</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">4.704</x>
         <y units="&#8491;">4.704</y>
         <z units="&#8491;">4.704</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.102</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Single particle tomography reconstruction of CCT5 complex with mutant huntingtin encapsulated within its cavity.</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2947::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2947.tif</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>