<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-3423" 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>2016-05-08</deposition>
         <header_release>2016-06-15</header_release>
         <map_release>2016-06-22</map_release>
         <update>2016-06-22</update>
      </key_dates>
      <title>Electron cryo-microscopy of human P-glycoprotein: Apo state - closed conformation</title>
      <authors_list>
         <author>Frank GA</author>
         <author>Shukla S</author>
         <author>Rao P</author>
         <author>Borgnia MJ</author>
         <author>Bartesaghi A</author>
         <author>Merk A</author>
         <author>Mobin A</author>
         <author>Esser L</author>
         <author>Earl LA</author>
         <author>Gottesman MM</author>
         <author>Xia D</author>
         <author>Ambudkar SV</author>
         <author>Subramaniam S</author>
      </authors_list>
      <keywords>human P-Glycoprotein, ABCB1, MDR-1, closed conformation, apo state, UIC2 Fab</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Frank GA</author>
               <author order="2">Shukla S</author>
               <author order="3">Rao P</author>
               <author order="4">Borgnia MJ</author>
               <author order="5">Bartesaghi A</author>
               <author order="6">Merk A</author>
               <author order="7">Mobin A</author>
               <author order="8">Esser L</author>
               <author order="9">Earl LA</author>
               <author order="10">Gottesman MM</author>
               <author order="11">Xia D</author>
               <author order="12">Ambudkar SV</author>
               <author order="13">Subramaniam S</author>
               <title>Conformational landscape of human P-glycoprotein (ABCB1) during its catalytic cycle</title>
               <journal>MOL.PHARMACOL.</journal>
               <volume>90</volume>
               <first_page>35</first_page>
               <last_page>41</last_page>
               <year>2016</year>
               <external_references type="PUBMED">27190212</external_references>
               <external_references type="DOI">doi:10.1124/mol.116.104190</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>human P-glycoprotein in apo state bound to UIC2 Fab</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>human P-glycoprotein in apo state bound to UIC2 Fab</name>
            <oligomeric_state>One monomer of P-glycoprotein bound to one UIC2 Fab</oligomeric_state>
            <number_unique_components>2</number_unique_components>
            <molecular_weight>
               <theoretical units="MDa">0.190</theoretical>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="P-gp, Pgp, ABCB1, MDR1">P-glycoprotein</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>Human</synonym_organism>
               <cellular_location>Plasma membrane</cellular_location>
            </natural_source>
            <molecular_weight>
               <theoretical units="MDa">0.141</theoretical>
            </molecular_weight>
            <number_of_copies>1</number_of_copies>
            <oligomeric_state>Monomer</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="7111">Trichoplusia ni</recombinant_organism>
               <recombinant_strain>BTI-TN-5B1-4</recombinant_strain>
               <recombinant_cell>High Five insect cells</recombinant_cell>
            </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">P08183</external_references>
               <external_references type="INTERPRO">IPR003593</external_references>
               <external_references type="INTERPRO">IPR011527</external_references>
               <external_references type="INTERPRO">IPR003439</external_references>
               <external_references type="INTERPRO">IPR017871</external_references>
               <external_references type="INTERPRO">IPR027417</external_references>
            </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="2">
            <name>UIC2 Fab</name>
            <natural_source database="NCBI">
               <organism ncbi="10090">Mus musculus</organism>
               <synonym_organism>mouse</synonym_organism>
               <tissue>Spleen</tissue>
               <cell>B cells</cell>
            </natural_source>
            <molecular_weight>
               <theoretical units="MDa">0.05</theoretical>
            </molecular_weight>
            <number_of_copies>1</number_of_copies>
            <oligomeric_state>Monomer</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
               <recombinant_cell>hybridoma</recombinant_cell>
            </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">3</concentration>
               <buffer>
                  <ph>7.5</ph>
                  <details>10 mM Tris-HCl pH 7.5, 150 mM NaCl, 0.09% n-Dodecyl Betta-D-maltoside</details>
               </buffer>
               <grid>
                  <details>200 mesh Cu R1.2/1.3 holey carbon grids from Quantifoil, plasma-cleaned</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">95</chamber_humidity>
                  <chamber_temperature units="K">83</chamber_temperature>
                  <instrument>LEICA EM GP</instrument>
               </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">0</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>47000.0</nominal_magnification>
               <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
               <date>2015-06-17</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>1009</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">30</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 using an automatic selection program.</details>
            <ctf_correction>
               <details>CTF parameters obtained from whole micrograph</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <resolution res_type="BY AUTHOR" units="&#8491;">22.0</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>EMAN2, Relion, 1.3</name>
                  </software>
               </software_list>
               <number_images_used>5315</number_images_used>
            </final_reconstruction>
            <final_two_d_classification>
               <number_classes>5</number_classes>
            </final_two_d_classification>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
   <map format="CCP4" size_kbytes="43905">
      <file>emd_3423.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>224</col>
         <row>224</row>
         <sec>224</sec>
      </dimensions>
      <origin>
         <col>0</col>
         <row>0</row>
         <sec>0</sec>
      </origin>
      <spacing>
         <x>224</x>
         <y>224</y>
         <z>224</z>
      </spacing>
      <cell>
         <a units="&#8491;">314.272</a>
         <b units="&#8491;">314.272</b>
         <c units="&#8491;">314.272</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>-0.01064984</minimum>
         <maximum>0.13034748</maximum>
         <average>0.00106839</average>
         <std>0.00843355</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">1.403</x>
         <y units="&#8491;">1.403</y>
         <z units="&#8491;">1.403</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>0.05</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of human P-glycoprotein in apo state bound to UIC2 Fab: Closed conformation</annotation_details>
      <details>::::EMDATABANK.org::::EMD-3423::::</details>
   </map>
   <interpretation>
      <modelling_list>
         <modelling>
            <initial_model>
               <access_code>4M1M</access_code>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <target_criteria>Overlap</target_criteria>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>4KSC</access_code>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <target_criteria>Overlap</target_criteria>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>2HYD</access_code>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <target_criteria>Overlap</target_criteria>
            <refinement_space>REAL</refinement_space>
         </modelling>
         <modelling>
            <initial_model>
               <access_code>4PL0</access_code>
            </initial_model>
            <refinement_protocol>RIGID BODY FIT</refinement_protocol>
            <software_list>
               <software>
                  <name>Chimera</name>
               </software>
            </software_list>
            <target_criteria>Overlap</target_criteria>
            <refinement_space>REAL</refinement_space>
         </modelling>
      </modelling_list>
      <figure_list>
         <figure>
            <file>emd_3423.png</file>
         </figure>
      </figure_list>
   </interpretation>
</emd>