<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_7/emdb.xsd" emdb_id="EMD-0789" version="3.0.1.7">
    <admin>
        <current_status>
            <date>2019-12-18</date>
            <code>REL</code>
            <processing_site>PDBj</processing_site>
        </current_status>
        <sites>
            <deposition>PDBj</deposition>
            <last_processing>PDBj</last_processing>
        </sites>
        <key_dates>
            <deposition>2019-09-24</deposition>
            <header_release>2019-12-18</header_release>
            <map_release>2019-12-18</map_release>
            <update>2019-12-18</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Ministry of Education (Czech Republic)</funding_body>
                <code>MOE2016-T2-02-088, MOE2015-T2-1-078, MOE2017-T2-2-089</code>
                <country>Singapore</country>
            </grant_reference>
        </grant_support>
        <title>Negatively stained reconstruction of a rubisco activase</title>
        <authors_list>
            <author>Tsai Y</author>
            <author>Liu D</author>
            <author>Bhushan S</author>
            <author>Mueller-Cajar O</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Tsai Y</author>
                    <author order="2">Liu D</author>
                    <author order="3">Bhushan S</author>
                    <author order="4">Mueller-Cajar O</author>
                    <title>Negatively stained reconstruction of a rubisco activase</title>
                    <journal_abbreviation>Proc.Natl.Acad.Sci.USA</journal_abbreviation>
                    <country>US</country>
                    <year>2019</year>
                    <external_references type="ISSN">1091-6490</external_references>
                    <external_references type="CSD">0040</external_references>
                    <external_references type="ASTM">PNASA6</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-0789</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>CBBQO type Rubisco activase</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>CBBQO type Rubisco activase</name>
                <parent>0</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="920">Acidithiobacillus ferrooxidans</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <molecular_weight>
                    <experimental units="kDa/nm">0.27</experimental>
                </molecular_weight>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Rubisco activase</name>
                <natural_source database="NCBI">
                    <organism ncbi="920">Acidithiobacillus ferrooxidans</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>DEXTRO</enantiomer>
                <sequence>
                    <string>MTATDSSILNQYLVGKEPFYQPQHDEVALFEAAYRKRLPVMVKGPTGCGKSRFVEFMAWRLGKPLVTVACNEDMTAADLVGRWLLDKDGTRWQDGPLTVAARYGAICYLDEIVEARQDTTVVIHPLTDHRRTLPLDKKGELIRAHPDFQLVISYNPGYQSLMKDLKQSTKQRFTGFEFDYPNAELEAGILVQETGVAPSIAAQLVTVAATARRLKGHGLDEGISTRLLVYAAMLMDDGVAPRAACRMALVQPITDDADIRATLEHAIDMTFA
 
MTDHPRDASLPSRLAAYRKQLDCRFPRVGEVFSDCIAKASARLGPAGVSAYVDAARALCKLGRGEEPVLIFLEEWPDVGAALGDGTLEMVMQMVQFMQRTPNGNAIGGFLQSLAPVSRALLSREQLGHYLNTLRDMMERTTGSIHGHHQTHPSPGLPELLRQAPTLLQSLTVDGLRNWVDYGVRNYLHHPERQKDFFSLQSADSRAVLQRERHGTLLADVERKLDLYLRGLWQDSEVLVPYSTAFATLRTPQPYYDALGMRLPDVLDDLPGIGALDHYRAILAHMVGHRRWSTPQIADNWSPFQRLAVEFFEDARIDTLLIRTYPGLRTLFLALHPKPGEDACDPETTSCLRHRLAMLSRALLDPEHGYRNPVLHDFVDRFHGELAGGNADTATMARLALDYVTTTRRQSDQFAKVHFADTEISYRDDNRGLWRFIESGDEEEAFDAEQRKAPDLETQGLPPRHYPEWDYQSQSYRPDWVSLYEGLHASAPAATIDQLLLKHAALAKHLKRLLDLLKPQDKVRIRYQEEGSELDLDVALRSWIDFKSGSTPDPRINMSHRTAGRDIAVTLLLDLSESLNESVKTGGGDGQTVLQLSQEAVSLLAWSIEQLGDPLAIAGFNSNTRHEVRYQHIKGFSEPWGDVVKGRLAALQAGYSTRMGAAMRHAGHYLATRKADKKLMLVLTDGRPSDVDVQDDRLLIEDARQAVNELDRDGIFTYCISLDPHADAYVADIFGRQYTVIDHIARLPEKLPELFIALTR
 </string>
                </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">0.05</concentration>
                    <buffer>
                        <ph>8</ph>
                        <details>20 mM Tris-HCl pH8.0, 50 mM NaCl</details>
                    </buffer>
                    <staining>
                        <type>NEGATIVE</type>
                        <material>Uranyl Acetate</material>
                        <details>The sample was applied to a carbon-coated TEM grid and stained with 2% (w/v) uranyl acetate</details>
                    </staining>
                    <grid>
                        <model>Homemade</model>
                        <material>COPPER</material>
                        <mesh>200</mesh>
                        <support_film film_type_id="1">
                            <film_material>CARBON</film_material>
                            <film_topology>CONTINUOUS</film_topology>
                            <film_thickness units="nm">6.0</film_thickness>
                        </support_film>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                            <atmosphere>AIR</atmosphere>
                        </pretreatment>
                    </grid>
                    <details>Monodisperse</details>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI 12</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">6.3</nominal_cs>
                    <nominal_defocus_min units="µm">1.25</nominal_defocus_min>
                    <calibrated_defocus_min units="µm">1.25</calibrated_defocus_min>
                    <nominal_defocus_max units="µm">1.5</nominal_defocus_max>
                    <calibrated_defocus_max units="µm">1.5</calibrated_defocus_max>
                    <calibrated_magnification>49000.0</calibrated_magnification>
                    <specimen_holder_model>GATAN 910 MULTI-SPECIMEN SINGLE TILT CRYO TRANSFER HOLDER</specimen_holder_model>
                    <alignment_procedure>
                        <basic/>
                    </alignment_procedure>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>FEI EAGLE (4k x 4k)</film_or_detector_model>
                            <number_grids_imaged>1</number_grids_imaged>
                            <number_real_images>60</number_real_images>
                            <average_exposure_time units="s">1.0</average_exposure_time>
                            <average_electron_dose_per_image units="e/Å^2">25.0</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <particle_selection>
                    <number_selected>32879</number_selected>
                </particle_selection>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                        </software>
                    </software_list>
                </ctf_correction>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <resolution units="Å" res_type="BY AUTHOR">16.0</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <number_images_used>15386</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>OTHER</type>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing/>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                </final_angle_assignment>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="501">
        <file>emd_0789.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>50</col>
            <row>50</row>
            <sec>50</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>50</x>
            <y>50</y>
            <z>50</z>
        </spacing>
        <cell>
            <a units="Å">209.5</a>
            <b units="Å">209.5</b>
            <c units="Å">209.5</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>-0.07980231</minimum>
            <maximum>0.36390454</maximum>
            <average>0.004813181</average>
            <std>0.02760975</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">4.19</x>
            <y units="Å">4.19</y>
            <z units="Å">4.19</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.0452</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-0789::::</label>
        <annotation_details>Negative stained 3D map of the rubisco activase</annotation_details>
    </map>
</emd>
