<?xml version='1.0' encoding='utf-8'?>
<emd emdb_id="EMD-11575" version="3.0.2.4" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_2_4/emdb.xsd">
    <admin>
        <current_status>
            <date>2021-04-07</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2020-08-03</deposition>
            <header_release>2020-09-23</header_release>
            <map_release>2020-09-23</map_release>
            <update>2021-04-07</update>
        </key_dates>
        <title>CryoEM Local map of Rubisco Activase from the complex with its substrate Rubisco from Nostoc sp. (strain PCC7120)</title>
        <authors_list>
            <author>Wang H</author>
            <author>Bracher A</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Flecken M</author>
                    <author order="2">Wang H</author>
                    <author order="3">Popilka L</author>
                    <author order="4">Hartl FU</author>
                    <author order="5">Bracher A</author>
                    <author order="6">Hayer-Hartl M</author>
                    <title>Dual Functions of a Rubisco Activase in Metabolic Repair and Recruitment to Carboxysomes.</title>
                    <journal_abbreviation>Cell</journal_abbreviation>
                    <volume>183</volume>
                    <first_page>457</first_page>
                    <last_page>473.e20</last_page>
                    <year>2020</year>
                    <external_references type="PUBMED">32979320</external_references>
                    <external_references type="DOI">doi:10.1016/j.cell.2020.09.010</external_references>
                    <external_references type="ISSN">1097-4172</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-11028</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>CryoEM structure of Rubisco Activase with its substrate Rubisco from Nostoc sp. (strain PCC7120)</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-11575</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>NosRca-deltaC:Rubisco complex</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>NosRca-deltaC:Rubisco complex</name>
                <parent>0</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>2</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>3</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <details>The Rca hexamer captured in the complex with its substrate Rubisco from Nostoc sp. PCC 7120.</details>
                <natural_source database="NCBI">
                    <organism ncbi="103690">Nostoc sp. PCC 7120 = FACHB-418</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                    <recombinant_strain>BL21 sTAR</recombinant_strain>
                </recombinant_expression>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="2">
                <name>AAA-core of the Rca hexamer from Nostoc sp. PCC7120 in complex with ATP/ATPgammaS</name>
                <parent>1</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="103690">Nostoc sp. PCC 7120 = FACHB-418</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                    <recombinant_strain>BL21 sTAR</recombinant_strain>
                </recombinant_expression>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="3">
                <name>Rubisco complex from Nostoc sp. PCC7120 in complex with inhibitor CABP</name>
                <parent>1</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>2</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>3</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="103690">Nostoc sp. PCC 7120 = FACHB-418</organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                    <recombinant_strain>BL21 sTAR</recombinant_strain>
                </recombinant_expression>
            </complex_supramolecule>
        </supramolecule_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">2.2</concentration>
                    <buffer>
                        <ph>8.4</ph>
                        <component>
                            <concentration units="mM">10.0</concentration>
                            <formula>C4H6O5</formula>
                            <name>Malic acid</name>
                        </component>
                        <component>
                            <concentration units="mM">20.0</concentration>
                            <formula>C6H13NO4S</formula>
                            <name>2-ethanesulfonic acid</name>
                        </component>
                        <component>
                            <concentration units="mM">20.0</concentration>
                            <formula>C4H11NO3</formula>
                            <name>2-Amino-2-hydroxymethyl-propane-1,3-diol</name>
                        </component>
                        <component>
                            <concentration units="mM">50.0</concentration>
                            <formula>KCl</formula>
                            <name>Potassium chloride</name>
                        </component>
                        <component>
                            <concentration units="mM">10.0</concentration>
                            <formula>MgCl2</formula>
                            <name>Magnesium chloride</name>
                        </component>
                        <component>
                            <concentration units="mM">5.0</concentration>
                            <formula>NaHCO3</formula>
                            <name>Sodium bicarbonate</name>
                        </component>
                        <component>
                            <concentration units="mM">0.004</concentration>
                            <formula>C6H14O13P2</formula>
                            <name>2-Carboxyarabinitol-1,5-diphosphate</name>
                        </component>
                        <component>
                            <concentration units="mM">2.0</concentration>
                            <formula>C10H16N5O13P3</formula>
                            <name>Adenosine triphosphate sodium salt</name>
                        </component>
                        <component>
                            <concentration units="mM">2.0</concentration>
                            <formula>C10H12Li4N5O12P3S</formula>
                            <name>Adenosine 5'-(3-thiotriphosphate) tetralithium salt</name>
                        </component>
                    </buffer>
                    <grid>
                        <model>Quantifoil</model>
                        <support_film film_type_id="1">
                            <film_material>CARBON</film_material>
                            <film_topology>HOLEY ARRAY</film_topology>
                        </support_film>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">90</chamber_humidity>
                        <chamber_temperature units="K">298</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                    </vitrification>
                    <details>NosRubisco (1 uM) was incubated with NaHCO3 (10 mM) at 298 K for 10 min followed by addition of CABP (8 uM). CABP-inhibited NosRubisco (0.5 uM) was then incubated with NosRcaDC (10 uM) in the presence of ATP (2 mM) for 10 s, followed by the addition of ATP-gammaS (2 mM), and incubated at 298 K for another 10 min before preparing the cryo-grids.</details>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI TITAN KRIOS</microscope>
                    <illumination_mode>SPOT SCAN</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">300</acceleration_voltage>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K3 (6k x 4k)</film_or_detector_model>
                            <number_grids_imaged>1</number_grids_imaged>
                            <number_real_images>9042</number_real_images>
                            <average_exposure_time units="s">2.8</average_exposure_time>
                            <average_electron_dose_per_image units="e/Å^2">60.0</average_electron_dose_per_image>
                            <details>31 frames per image</details>
                        </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>519151</number_selected>
                </particle_selection>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>CTFFIND</name>
                            <version>4.1</version>
                        </software>
                    </software_list>
                </ctf_correction>
                <startup_model type_of_model="PDB ENTRY">
                    <pdb_model>
                        <pdb_id>1RBL</pdb_id>
                    </pdb_model>
                </startup_model>
                <final_reconstruction>
                    <resolution res_type="BY AUTHOR" units="Å">3.29</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <number_images_used>21149</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                </final_angle_assignment>
                <final_three_d_classification>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                </final_three_d_classification>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="186625">
        <file>emd_11575.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>360</col>
            <row>360</row>
            <sec>360</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>360</x>
            <y>360</y>
            <z>360</z>
        </spacing>
        <cell>
            <a units="Å">306.432</a>
            <b units="Å">306.432</b>
            <c units="Å">306.432</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>-0.031081885</minimum>
            <maximum>0.05226625</maximum>
            <average>2.3150458e-05</average>
            <std>0.0011149904</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">0.85120004</x>
            <y units="Å">0.85120004</y>
            <z units="Å">0.85120004</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.012</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-11575::::</label>
        <annotation_details>CryoEM local map of Rubisco Activase  from the complex with its substrate Rubisco from Nostoc sp. (strain PCC7120)</annotation_details>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <refinement_protocol>OTHER</refinement_protocol>
                <refinement_space>RECIPROCAL</refinement_space>
            </modelling>
        </modelling_list>
    </interpretation>
</emd>