<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2975" 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>2015-04-07</deposition>
         <header_release>2015-05-06</header_release>
         <map_release>2015-10-07</map_release>
         <update>2015-11-25</update>
      </key_dates>
      <title>Cryo electron microscopy of yeast vacuolar ATPase proton channel sector</title>
      <authors_list>
         <author>Couoh-Cardel S</author>
         <author>Milgrom E</author>
         <author>Wilkens S</author>
      </authors_list>
      <keywords>yeast vacuolar ATPase, proton channel sector, reversible disassembly, membrane protein</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Couoh-Cardel S</author>
               <author order="2">Milgrom E</author>
               <author order="3">Wilkens S</author>
               <title>Affinity Purification and Structural Features of the Yeast Vacuolar ATPase Vo Membrane Sector.</title>
               <journal>J.BIOL.CHEM.</journal>
               <volume>290</volume>
               <first_page>27959</first_page>
               <last_page>27971</last_page>
               <year>2015</year>
               <external_references type="PUBMED">26416888</external_references>
               <external_references type="DOI">doi:10.1074/jbc.M115.662494</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Membrane sector (Vo) of yeast vacuolar ATPase</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Membrane sector (Vo) of yeast vacuolar ATPase</name>
            <details>Sample was monodisperse</details>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">0.53</experimental>
               <theoretical units="MDa">0.32</theoretical>
               <method>Small Angle X-ray Scattering</method>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="Vo">Vacuolar ATPase membrane sector</name>
            <natural_source database="NCBI">
               <organism ncbi="4932">Saccharomyces cerevisiae</organism>
               <synonym_organism>Baker's yeast</synonym_organism>
               <cellular_location>vacuole</cellular_location>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.530</experimental>
               <theoretical units="MDa">0.32</theoretical>
            </molecular_weight>
            <details>V-ATPase membrane sector composed of subunits a, c, c', c'', d, e in the ratio 1:8:1:1:1:1</details>
            <number_of_copies>1</number_of_copies>
            <oligomeric_state>monomer</oligomeric_state>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               </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">2</concentration>
               <buffer>
                  <ph>8.0</ph>
                  <details>10 mM TRIS-HCl, 10 mM BME, 0.5 mM EGTA, 0.1 % dodecyl-beta-D-maltoside</details>
               </buffer>
               <grid>
                  <details>400 mesh holey carbon (C-flat 2/2) glow discharged in air</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_temperature units="K">90</chamber_temperature>
                  <instrument>HOMEMADE PLUNGER</instrument>
                  <method>5 sec blot in cold room</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>JEOL 2100</microscope>
               <illumination_mode>FLOOD BEAM</illumination_mode>
               <imaging_mode>BRIGHT FIELD</imaging_mode>
               <electron_source>LAB6</electron_source>
               <acceleration_voltage units="kV">120</acceleration_voltage>
               <nominal_cs units="mm">2</nominal_cs>
               <nominal_defocus_min units="&#181;m">1.5</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">2.5</nominal_defocus_max>
               <nominal_magnification>40000.0</nominal_magnification>
               <calibrated_magnification>57200.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_min units="K">97</temperature_min>
                  <temperature_max units="K">113</temperature_max>
                  <temperature_average units="K">103</temperature_average>
               </temperature>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>Astigmatism was corrected at 200,000 times magnification over carbon film using live power spectrum</astigmatism>
                  </legacy>
               </alignment_procedure>
               <date>2010-11-10</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">TVIPS TEMCAM-F415 (4k x 4k)</film_or_detector_model>
                     <digitization_details>
                        <sampling_interval units="&#181;m">15</sampling_interval>
                     </digitization_details>
                     <average_electron_dose_per_image units="e/&#8491;^2">15</average_electron_dose_per_image>
                     <bits_per_pixel>8.</bits_per_pixel>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>Particle selection with EMAN1.9/Boxer; all subsequent image analysis with IMAGIC 5.</details>
            <ctf_correction>
               <details>Each particle set (by micrograph)</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">18.0</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>IMAGIC, 5</name>
                  </software>
               </software_list>
               <number_images_used>12035</number_images_used>
            </final_reconstruction>
            <final_two_d_classification>
               <number_classes>217</number_classes>
            </final_two_d_classification>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="2001">
      <file>emd_2975.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>80</col>
         <row>80</row>
         <sec>80</sec>
      </dimensions>
      <origin>
         <col>-40</col>
         <row>-40</row>
         <sec>-40</sec>
      </origin>
      <spacing>
         <x>80</x>
         <y>80</y>
         <z>80</z>
      </spacing>
      <cell>
         <a units="&#8491;">209.59999</a>
         <b units="&#8491;">209.59999</b>
         <c units="&#8491;">209.59999</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>-0.31523371</minimum>
         <maximum>0.42559427</maximum>
         <average>0.00741531</average>
         <std>0.0690999</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">2.62</x>
         <y units="&#8491;">2.62</y>
         <z units="&#8491;">2.62</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.1</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of yeast V-ATPase membrane sector (Vo)</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2975::::</details>
   </map>
   <interpretation>
      <figure_list>
         <figure>
            <file>emd_2975.tif</file>
         </figure>
      </figure_list>
   </interpretation>
   <validation>
      <fsc_curve>
         <file>emd_2975_fsc.xml</file>
      </fsc_curve>
   </validation>
</emd>