<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="https://ftp.ebi.ac.uk/pub/databases/em_ebi/emdb_related/emdb-schemas/emdb_schemas/v3/v3_0_9_3/emdb.xsd" version="3.0.9.3" emdb_id="EMD-11971">
    <admin>
        <current_status>
            <date>2024-11-13</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2020-11-22</deposition>
            <header_release>2021-12-01</header_release>
            <map_release>2021-12-01</map_release>
            <update>2024-11-13</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>H2020 Marie Curie Actions of the European Commission</funding_body>
                <code>721456</code>
                <country>Germany</country>
            </grant_reference>
        </grant_support>
        <title>Stressosome complex from Listeria innocua</title>
        <authors_list>
            <author>Miksys A</author>
            <author>Fu L</author>
        </authors_list>
        <keywords>Stressosome, stress sensing, general stress response, phosphorylation cascade, SIGNALING PROTEIN</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Miksys A</author>
                    <author order="2">Fu L</author>
                    <author ORCID="0000-0001-9181-6387" order="3">Madej MG</author>
                    <author ORCID="0000-0002-3953-1752" order="4">Guerreiro DN</author>
                    <author ORCID="0000-0002-4112-2771" order="5">Kaltwasser S</author>
                    <author order="6">Conway M</author>
                    <author ORCID="0000-0002-7232-6988" order="7">Ejder S</author>
                    <author ORCID="0000-0001-6082-2944" order="8">Bruckmann A</author>
                    <author ORCID="0000-0002-9156-3284" order="9">Marles-Wright J</author>
                    <author order="10">Lewis RJ</author>
                    <author order="11">O'Byrne C</author>
                    <author ORCID="0000-0003-2723-2568" order="12">Pane-Farre J</author>
                    <author ORCID="0000-0003-3439-7213" order="13">Ziegler C</author>
                    <title>Molecular insights into intra-complex signal transmission during stressosome activation.</title>
                    <journal_abbreviation>Commun Biol</journal_abbreviation>
                    <country>UK</country>
                    <volume>5</volume>
                    <first_page>621</first_page>
                    <last_page>621</last_page>
                    <year>2022</year>
                    <external_references type="PUBMED">35760945</external_references>
                    <external_references type="DOI">doi:10.1038/s42003-022-03549-9</external_references>
                    <external_references type="ISSN">2399-3642</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>7b0u</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>stressosome complex RsbR and RsbS</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>stressosome complex RsbR and RsbS</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>
                        <macromolecule_id>4</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>5</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="272626">Listeria innocua Clip11262</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">1.5</theoretical>
                </molecular_weight>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>RsbR protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="272626">Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)</organism>
                    <strain>ATCC BAA-680 / CLIP 11262</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.031704586</theoretical>
                </molecular_weight>
                <number_of_copies>16</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MYKDFANFIRTNKKDLLNNWMNEMEKQSDPLINDIAKEPMYEETSIEFVDLIVSNITENGSKFNEKLDDFAEKVVHLGWP
IHFVTTGLRVFGLLVYTAMRDEDLFLKREEKPEDDAYYRFETWLSSMYNKVVTAYADTWEKTVSIQKSALQELSAPLLPI
FEKISVMPLIGTIDTERAKLIIENLLIGVVKNRSEVVLIDITGVPVVDTMVAHHIIQASEAVRLVGCQAMLVGIRPEIAQ
TIVNLGIELDQIITTNTMKKGMERALALTNREIVEKEG</string>
                    <external_references type="UNIPROTKB">Q92DC6</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>RsbR protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="272626">Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)</organism>
                    <strain>ATCC BAA-680 / CLIP 11262</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.031784566</theoretical>
                </molecular_weight>
                <number_of_copies>16</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MYKDFANFIRTNKKDLLNNWMNEMEKQSDPLINDIAKEPMYEETSIEFVDLIVSNITENGSKFNEKLDDFAEKVVHLGWP
IHFVTTGLRVFGLLVYTAMRDEDLFLKREEKPEDDAYYRFETWLSSMYNKVVTAYADTWEKTVSIQKSALQELSAPLLPI
FEKISVMPLIGTIDTERAKLIIENLLIGVVKNRSEVVLIDITGVPVVDTMVAHHIIQASEAVRLVGCQAMLVGIRPEIAQ
(TPO)IVNLGIELDQIITTNTMKKGMERALALTNREIVEKEG</string>
                    <external_references type="UNIPROTKB">Q92DC6</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>RsbS protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="272626">Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)</organism>
                    <strain>ATCC BAA-680 / CLIP 11262</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.012606707</theoretical>
                </molecular_weight>
                <number_of_copies>20</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MGIPILKLGECLLISIQSELDDHTAVEFQEDLLAKIHETSARGVVIDITSIDFIDSFIAKILGDVVSMSKLMGAKVVVTG
IQPAVAITLIELGITFSGVLSAMDLESGLEKLKQELGE</string>
                    <external_references type="UNIPROTKB">Q7AP18</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="4">
                <name>RsbR protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="272626">Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)</organism>
                    <strain>ATCC BAA-680 / CLIP 11262</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.031864547</theoretical>
                </molecular_weight>
                <number_of_copies>4</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MYKDFANFIRTNKKDLLNNWMNEMEKQSDPLINDIAKEPMYEETSIEFVDLIVSNITENGSKFNEKLDDFAEKVVHLGWP
IHFVTTGLRVFGLLVYTAMRDEDLFLKREEKPEDDAYYRFETWLSSMYNKVVTAYADTWEKTVSIQKSALQELSAPLLPI
FEKISVMPLIGTID(TPO)ERAKLIIENLLIGVVKNRSEVVLIDITGVPVVDTMVAHHIIQASEAVRLVGCQAMLVGIRP
EIAQ(TPO)IVNLGIELDQIITTNTMKKGMERALALTNREIVEKEG</string>
                    <external_references type="UNIPROTKB">Q92DC6</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="5">
                <name>RsbR protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="272626">Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)</organism>
                    <strain>ATCC BAA-680 / CLIP 11262</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.031784566</theoretical>
                </molecular_weight>
                <number_of_copies>4</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="511693">Escherichia coli BL21</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MYKDFANFIRTNKKDLLNNWMNEMEKQSDPLINDIAKEPMYEETSIEFVDLIVSNITENGSKFNEKLDDFAEKVVHLGWP
IHFVTTGLRVFGLLVYTAMRDEDLFLKREEKPEDDAYYRFETWLSSMYNKVVTAYADTWEKTVSIQKSALQELSAPLLPI
FEKISVMPLIGTID(TPO)ERAKLIIENLLIGVVKNRSEVVLIDITGVPVVDTMVAHHIIQASEAVRLVGCQAMLVGIRP
EIAQTIVNLGIELDQIITTNTMKKGMERALALTNREIVEKEG</string>
                    <external_references type="UNIPROTKB">Q92DC6</external_references>
                </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">0.6</concentration>
                    <buffer>
                        <ph>8.5</ph>
                        <component>
                            <concentration units="mM">100.0</concentration>
                            <formula>NaCl</formula>
                            <name>sodium chloride</name>
                        </component>
                        <component>
                            <concentration units="mM">50.0</concentration>
                            <formula>C4H11NO3</formula>
                            <name>tris</name>
                        </component>
                        <details>pH 8.5</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil</model>
                        <material>COPPER</material>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                            <time units="s">120</time>
                            <pressure units="kPa">0.029</pressure>
                        </pretreatment>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">277</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>TFS 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">2.7</nominal_cs>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>FEI FALCON III (4k x 4k)</film_or_detector_model>
                            <detector_mode>INTEGRATING</detector_mode>
                            <average_electron_dose_per_image units="e/Å^2">50.0</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>
                <startup_model type_of_model="INSILICO MODEL"/>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>D2</point_group>
                    </applied_symmetry>
                    <resolution units="Å" res_type="BY AUTHOR">3.86</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>3.0</version>
                        </software>
                        <software>
                            <name>cryoSPARC</name>
                            <version>V2</version>
                        </software>
                    </software_list>
                    <number_images_used>32031</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </final_angle_assignment>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="226493">
        <file>emd_11971.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>384</col>
            <row>384</row>
            <sec>384</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>384</x>
            <y>384</y>
            <z>384</z>
        </spacing>
        <cell>
            <a units="Å">408.38403</a>
            <b units="Å">408.38403</b>
            <c units="Å">408.38403</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">90.0</gamma>
        </cell>
        <axis_order>
            <fast>Y</fast>
            <medium>X</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-3.3991375</minimum>
            <maximum>6.5165963</maximum>
            <average>0.0034875653</average>
            <std>0.24009643</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">1.0635</x>
            <y units="Å">1.0635</y>
            <z units="Å">1.0635</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.735</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-11971::::</label>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <refinement_protocol>AB INITIO MODEL</refinement_protocol>
                <target_criteria>Correlation coefficient</target_criteria>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
    </interpretation>
</emd>
