<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" emdb_id="EMD-2324" 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>2013-02-28</deposition>
         <header_release>2013-03-27</header_release>
         <map_release>2013-03-27</map_release>
         <update>2013-12-18</update>
      </key_dates>
      <title>Electron cryo-microscopy of a cross-beta amyloid fibril polymorph</title>
      <authors_list>
         <author>Fitzpatrick AWP</author>
         <author>Debelouchina GT</author>
         <author>Bayro MJ</author>
         <author>Clare DK</author>
         <author>Caporini MA</author>
         <author>Bajaj VS</author>
         <author>Jaroniec CP</author>
         <author>Wang L</author>
         <author>Ladizhansky V</author>
         <author>Muller S</author>
         <author>MacPhee CE</author>
         <author>Waudby CA</author>
         <author>Mott HR</author>
         <author>De-Simone A</author>
         <author>Knowles TPJ</author>
         <author>Saibil HR</author>
         <author>Vendruscolo M</author>
         <author>Orlova EV</author>
         <author>Griffin RG</author>
         <author>Dobson CM</author>
      </authors_list>
      <keywords>amyloid fibrils, cross-beta structure, protein aggregation, polymorphism</keywords>
   </admin>
   <crossreferences>
      <citation_list>
         <primary_citation>
            <journal_citation published="true">
               <author order="1">Fitzpatrick AW</author>
               <author order="2">Debelouchina GT</author>
               <author order="3">Bayro MJ</author>
               <author order="4">Clare DK</author>
               <author order="5">Caporini MA</author>
               <author order="6">Bajaj VS</author>
               <author order="7">Jaroniec CP</author>
               <author order="8">Wang L</author>
               <author order="9">Ladizhansky V</author>
               <author order="10">Muller SA</author>
               <author order="11">Macphee CE</author>
               <author order="12">Waudby CA</author>
               <author order="13">Mott HR</author>
               <author order="14">De Simone A</author>
               <author order="15">Knowles TP</author>
               <author order="16">Saibil HR</author>
               <author order="17">Vendruscolo M</author>
               <author order="18">Orlova EV</author>
               <author order="19">Griffin RG</author>
               <author order="20">Dobson CM</author>
               <title>Atomic structure and hierarchical assembly of a cross-beta amyloid fibril.</title>
               <journal>PROC.NAT.ACAD.SCI.USA</journal>
               <volume>110</volume>
               <first_page>5468</first_page>
               <last_page>5473</last_page>
               <year>2013</year>
               <external_references type="PUBMED">23513222</external_references>
               <external_references type="DOI">doi:10.1073/pnas.1219476110</external_references>
            </journal_citation>
         </primary_citation>
      </citation_list>
      <pdb_list>
         <pdb_reference>
            <pdb_id>3zpk</pdb_id>
            <relationship>
               <in_frame>FULLOVERLAP</in_frame>
            </relationship>
         </pdb_reference>
      </pdb_list>
   </crossreferences>
   <sample>
      <name>Quadruplet cross-beta amyloid fibril polymorph</name>
      <supramolecule_list>
         <sample_supramolecule supramolecule_id="1000">
            <name>Quadruplet cross-beta amyloid fibril polymorph</name>
            <number_unique_components>1</number_unique_components>
         </sample_supramolecule>
      </supramolecule_list>
      <macromolecule_list>
         <protein_or_peptide macromolecule_id="1">
            <name synonym="TTR(105-115)">Transthyretin(105-115)</name>
            <natural_source database="NCBI">
               <organism ncbi="10116">Rattus norvegicus</organism>
               <synonym_organism>Norway rat</synonym_organism>
            </natural_source>
            <recombinant_exp_flag>false</recombinant_exp_flag>
            <recombinant_expression database="NCBI">
               </recombinant_expression>
            <sequence>
               <external_references type="UNIPROTKB">P02767</external_references>
            </sequence>
         </protein_or_peptide>
      </macromolecule_list>
   </sample>
   <structure_determination_list>
      <structure_determination structure_determination_id="1">
         <method>singleParticle</method>
         <aggregation_state>filament</aggregation_state>
         <specimen_preparation_list>
            <single_particle_preparation preparation_id="1">
               <concentration units="mg/mL">1</concentration>
               <buffer>
                  <ph>2.0</ph>
                  <details>10% acetonitrile/water solution</details>
               </buffer>
               <grid>
                  <details>For cryo-EM imaging, fibrils were applied to holey carbon films (R2/2, QuantifoilMicro Tools GmbH, Jena, Germany) that were immediately plunge-frozen at liquid nitrogen temperature.</details>
               </grid>
               <vitrification>
                  <cryogen_name>ETHANE</cryogen_name>
                  <chamber_humidity units="percentage">95</chamber_humidity>
                  <chamber_temperature units="K">99</chamber_temperature>
                  <instrument>HOMEMADE PLUNGER</instrument>
                  <method>For cryo-EM imaging, fibrils were applied to holey carbon films (R2/2, QuantifoilMicro Tools GmbH, Jena, Germany) that were immediately plunge-frozen at liquid nitrogen temperature.</method>
               </vitrification>
            </single_particle_preparation>
         </specimen_preparation_list>
         <microscopy_list>
            <single_particle_microscopy microscopy_id="1">
               <microscope>FEI TECNAI F20</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_defocus_min units="&#181;m">0.9</nominal_defocus_min>
               <nominal_defocus_max units="&#181;m">3.0</nominal_defocus_max>
               <nominal_magnification>40000.0</nominal_magnification>
               <calibrated_magnification>40000.0</calibrated_magnification>
               <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
               <temperature>
                  <temperature_min units="K">99</temperature_min>
                  <temperature_max units="K">100</temperature_max>
                  <temperature_average units="K">99</temperature_average>
               </temperature>
               <alignment_procedure>
                  <legacy>
                     <astigmatism>Objective lens astigmatism was corrected at 100,000 times magnification.</astigmatism>
                  </legacy>
               </alignment_procedure>
               <date>2006-03-03</date>
               <image_recording_list>
                  <image_recording>
                     <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                     <digitization_details>
                        <scanner>ZEISS SCAI</scanner>
                     </digitization_details>
                     <number_real_images>250</number_real_images>
                  </image_recording>
               </image_recording_list>
               <specimen_holder>Nitrogen cooled</specimen_holder>
               <tilt_angle_min>0</tilt_angle_min>
               <tilt_angle_max>0</tilt_angle_max>
            </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>CTFFIND3</details>
            </ctf_correction>
            <final_reconstruction>
               <applied_symmetry>
                  <point_group>C1</point_group>
               </applied_symmetry>
               <algorithm>OTHER</algorithm>
               <resolution res_type="BY AUTHOR" units="&#8491;">11.6</resolution>
               <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
               <software_list>
                  <software>
                     <name>SPIER, IMAGIC, BKRP</name>
                  </software>
               </software_list>
               <number_images_used>175</number_images_used>
            </final_reconstruction>
            <final_two_d_classification>
               <number_classes>31</number_classes>
            </final_two_d_classification>
         </singleparticle_processing>
      </structure_determination>
   </structure_determination_list>
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      <file>emd_2324.map.gz</file>
      <symmetry>
         <space_group>1</space_group>
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         <col>120</col>
         <row>120</row>
         <sec>298</sec>
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         <row>-59</row>
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         <a units="&#8491;">216.0</a>
         <b units="&#8491;">216.0</b>
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         <alpha units="deg">90.0</alpha>
         <beta units="deg">90.0</beta>
         <gamma units="deg">90.0</gamma>
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      <axis_order>
         <fast>X</fast>
         <medium>Y</medium>
         <slow>Z</slow>
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      <statistics>
         <minimum>-218.113327029999994</minimum>
         <maximum>974.851257319999945</maximum>
         <average>47.512786869999999</average>
         <std>161.074722290000011</std>
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      <pixel_spacing>
         <x units="&#8491;">1.8</x>
         <y units="&#8491;">1.8</y>
         <z units="&#8491;">1.7999998</z>
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         <contour primary="true">
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            <source>AUTHOR</source>
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      <annotation_details>Reconstruction of quadruplet cross-beta amyloid fibril polymorph</annotation_details>
      <details>::::EMDATABANK.org::::EMD-2324::::</details>
   </map>
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