<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2689" 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>2014-06-21</deposition>
         <header_release>2014-07-30</header_release>
         <map_release>2014-08-13</map_release>
         <update>2014-10-29</update>
      </key_dates>
      <title>Density map of GluA2em in complex with quisqualate and LY451646</title>
      <authors_list>
         <author>Meyerson JR</author>
         <author>Kumar J</author>
         <author>Chittori S</author>
         <author>Rao P</author>
         <author>Pierson J</author>
         <author>Bartesaghi A</author>
         <author>Mayer ML</author>
         <author>Subramaniam S</author>
      </authors_list>
      <keywords>GluA2em restored activated state</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Meyerson JR</author>
               <author order="2">Kumar J</author>
               <author order="3">Chittori S</author>
               <author order="4">Rao P</author>
               <author order="5">Pierson J</author>
               <author order="6">Bartesaghi A</author>
               <author order="7">Mayer ML</author>
               <author order="8">Subramaniam S</author>
               <title>Structural mechanism of glutamate receptor activation and desensitization</title>
               <journal>NATURE</journal>
               <volume>514</volume>
               <first_page>328</first_page>
               <last_page>334</last_page>
               <year>2014</year>
               <external_references type="PUBMED">25119039</external_references>
               <external_references type="DOI">doi:10.1038/NATURE13603</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>4uqk</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>GluA2em with LY451646 and quisqualic acid</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>GluA2em with LY451646 and quisqualic acid</name>
            <number_unique_components>1</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">0.37</experimental>
               <theoretical units="MDa">0.37</theoretical>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name>GluA2</name>
            <natural_source database="NCBI">
               <organism ncbi="10116">Rattus norvegicus</organism>
               <synonym_organism>Rat</synonym_organism>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.37</experimental>
               <theoretical units="MDa">0.37</theoretical>
            </molecular_weight>
            <oligomeric_state>Tetramer</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="7108">Spodoptera frugiperda</recombinant_organism>
               <recombinant_cell>Sf9</recombinant_cell>
               <recombinant_plasmid>pFastBac1</recombinant_plasmid>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">P19491</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">
               <concentration units="mg/mL">1.8</concentration>
               <buffer>
                  <ph>8.0</ph>
                  <details>150 mM NaCl, 20 mM Tris pH 8.0, 0.75 mM DDM, 0.12 mM CHS, 0.5 LY451646, 1 mM quisqualic acid</details>
               </buffer>
               <grid>
                  <details>Vitrified specimens were prepared by adding 2.5 uL of liganded protein
at 1.8 mg/ml to R2/2 holey carbon grids (Quantifoil, Jena, Germany)
rendered hydrophilic by chemical treatment to enable particle
distribution into the holes (Meyerson JR, Rao P, Kumar K, Chittori S,
Banerjee S, Pierson J, Mayer ML, and Subramaniam S, manuscript in
preparation).</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">100</chamber_humidity>
                  <chamber_temperature units="K">120</chamber_temperature>
                  <instrument>FEI VITROBOT MARK IV</instrument>
                  <method>LY451646 was added to quisqualate-bound protein 30 minutes before vitrification, blot for 2 seconds 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_defocus_min units="&#181;m">2.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">3.5</nominal_defocus_max>
               <nominal_magnification>47000.0</nominal_magnification>
               <calibrated_magnification>47000.0</calibrated_magnification>
               <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
               <date>2013-08-01</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">FEI FALCON II (4k x 4k)</film_or_detector_model>
                     <number_real_images>1303</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">25</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>The particles were selected interactively at the computer terminal.</details>
            <ctf_correction>
               <details>Each particle</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C2</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">16.4</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>Relion</name>
                  </software>
               </software_list>
               <number_images_used>4795</number_images_used>
            </final_reconstruction>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="31251">
      <file>emd_2689.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>200</col>
         <row>200</row>
         <sec>200</sec>
      </dimensions>
      <origin>
         <col>100</col>
         <row>100</row>
         <sec>100</sec>
      </origin>
      <spacing>
         <x>200</x>
         <y>200</y>
         <z>200</z>
      </spacing>
      <cell>
         <a units="&#8491;">281.2</a>
         <b units="&#8491;">281.2</b>
         <c units="&#8491;">281.2</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>-0.02719467</minimum>
         <maximum>0.16527918</maximum>
         <average>0.00317414</average>
         <std>0.02141263</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.406</x>
         <y units="&#8491;">1.406</y>
         <z units="&#8491;">1.406</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.0361</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of restored GluA2em activated state</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2689::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>3KG2</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
               <chain>
                  <chain_id>B</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <details>Two copies of a 3KG2 ATD dimer assembly were fit to the EM map</details>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>1FTJ</access_code>
               <chain>
                  <chain_id>A</chain_id>
               </chain>
               <chain>
                  <chain_id>C</chain_id>
               </chain>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <details>Two copies of a 1FTJ LBD dimer assembly were fit to the EM map</details>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
   </interpretation>
</emd>