<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2753" 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>2014-08-11</deposition>
         <header_release>2014-08-27</header_release>
         <map_release>2015-04-15</map_release>
         <update>2016-02-17</update>
      </key_dates>
      <title>PGT124 in complex with BG505 SOSIP.664 Env trimer</title>
      <authors_list>
         <author>Garces F</author>
         <author>Sok D</author>
         <author>Kong L</author>
         <author>McBride R</author>
         <author>Kim HJ</author>
         <author>Saye-Francisco KF</author>
         <author>Julien J-P</author>
         <author>Hua Y</author>
         <author>Cupo A</author>
         <author>Moore JP</author>
         <author>Ward AB</author>
         <author>Paulson JC</author>
         <author>Burton DR</author>
         <author>Wilson IA</author>
      </authors_list>
      <keywords>PGT124, HIV-1, envelope glycoprotein trimer, SOSIP, broadly neutralizing antibody</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Garces F</author>
               <author order="2">Sok D</author>
               <author order="3">Kong L</author>
               <author order="4">McBride R</author>
               <author order="5">Kim HJ</author>
               <author order="6">Saye-Francisco KF</author>
               <author order="7">Julien JP</author>
               <author order="8">Hua Y</author>
               <author order="9">Cupo A</author>
               <author order="10">Moore JP</author>
               <author order="11">Paulson JC</author>
               <author order="12">Ward AB</author>
               <author order="13">Burton DR</author>
               <author order="14">Wilson IA</author>
               <title>Structural evolution of glycan recognition by a family of potent HIV antibodies.</title>
               <journal>CELL(CAMBRIDGE,MASS.)</journal>
               <volume>159</volume>
               <first_page>69</first_page>
               <last_page>79</last_page>
               <year>2014</year>
               <external_references type="PUBMED">25259921</external_references>
               <external_references type="DOI">doi:10.1016/j.cell.2014.09.009</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
   </crossreferences>
   <sample>
      <name>Fab fragment of PGT124 monoclonal antibody isolated from human patient in Protocol G cohort. SOSIP.664 soluble Env trimer from HIV-1 virus infecting infant (BG505).</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Fab fragment of PGT124 monoclonal antibody isolated from human patient in Protocol G cohort. SOSIP.664 soluble Env trimer from HIV-1 virus infecting infant (BG505).</name>
            <oligomeric_state>One SOSIP trimer binds 3 PGT124 Fabs</oligomeric_state>
            <number_unique_components>2</number_unique_components>
            <molecular_weight>
               <experimental units="MDa">0.75</experimental>
               <theoretical units="MDa">0.75</theoretical>
            </molecular_weight>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="Fab">Fragment antigen binding</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>human</synonym_organism>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.05</experimental>
               <theoretical units="MDa">0.05</theoretical>
            </molecular_weight>
            <details>Fab consists of heavy and light chain</details>
            <number_of_copies>3</number_of_copies>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
               <recombinant_cell>HEK293F</recombinant_cell>
            </recombinant_expression>
            <sequence>
               </sequence>
         </protein_or_peptide>
         <protein_or_peptide macromolecule_id="2">
            <name synonym="SOSIP trimer">BG505 SOSIP.664 gp140</name>
            <natural_source database="NCBI">
               <organism ncbi="9606">Homo sapiens</organism>
               <synonym_organism>human</synonym_organism>
            </natural_source>
            <molecular_weight>
               <experimental units="MDa">0.6</experimental>
               <theoretical units="MDa">0.6</theoretical>
            </molecular_weight>
            <details>SOSIP trimer consists of 3 gp140 subunits</details>
            <number_of_copies>1</number_of_copies>
            <oligomeric_state>Trimer</oligomeric_state>
            <recombinant_exp_flag>true</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
               <recombinant_cell>HEK293F</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">0.01</concentration>
               <buffer>
                  <ph>7.4</ph>
                  <details>TBS</details>
               </buffer>
               <staining>
                  <type>NEGATIVE</type>
                  <details>2% uranyl formate</details>
               </staining>
               <grid>
                  <details>400 copper mesh with thin carbon support glow discharged</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 SPIRIT</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_defocus_min units="&#181;m">1.0</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">1.0</nominal_defocus_max>
               <nominal_magnification>52000.0</nominal_magnification>
               <calibrated_magnification>52000.0</calibrated_magnification>
               <specimen_holder_model>SIDE ENTRY, EUCENTRIC</specimen_holder_model>
               <date>2013-07-23</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="CCD">TVIPS TEMCAM-F416 (4k x 4k)</film_or_detector_model>
                     <digitization_details>
                        <sampling_interval units="&#181;m">2.05</sampling_interval>
                     </digitization_details>
                     <number_real_images>594</number_real_images>
                     <average_electron_dose_per_image units="e/&#8491;^2">25</average_electron_dose_per_image>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>room temp</specimen_holder>
               <tilt_angle_min>0</tilt_angle_min>
               <tilt_angle_max>55</tilt_angle_max>
            </single_particle_microscopy>
         </microscopy_list>
         <singleparticle_processing image_processing_id="1">
            <details>Particles were selected with DoG Picker, an automatic selection program</details>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C3</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">17.8</resolution>
               <resolution_method>OTHER</resolution_method>
               <software_list>
                  <software>
                     <name>EMAN2</name>
                  </software>
               </software_list>
               <number_images_used>12245</number_images_used>
            </final_reconstruction>
            <final_two_d_classification>
               <number_classes>120</number_classes>
            </final_two_d_classification>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
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      <file>emd_2753.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
      </symmetry>
      <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
      <dimensions>
         <col>160</col>
         <row>160</row>
         <sec>160</sec>
      </dimensions>
      <origin>
         <col>-39</col>
         <row>-39</row>
         <sec>-39</sec>
      </origin>
      <spacing>
         <x>160</x>
         <y>160</y>
         <z>160</z>
      </spacing>
      <cell>
         <a units="&#8491;">328.0</a>
         <b units="&#8491;">328.0</b>
         <c units="&#8491;">328.0</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>-3.73774481</minimum>
         <maximum>11.876063350000001</maximum>
         <average>0.0</average>
         <std>0.90726209</std>
      </statistics>
      <pixel_spacing>
         <x units="&#8491;">2.05</x>
         <y units="&#8491;">2.05</y>
         <z units="&#8491;">2.05</z>
      </pixel_spacing>
      <contour_list>
         <contour primary="true">
            <level>2.8</level>
            <source>AUTHOR</source>
         </contour>
      </contour_list>
      <annotation_details>Reconstruction of PGT124 Fab in complex with BG505 SOSIP.664 Env trimer</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2753::::</details>
   </map>
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