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    <admin>
        <current_status>
            <date>2017-08-16</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2017-07-10</deposition>
            <header_release>2017-08-16</header_release>
            <map_release>2017-08-16</map_release>
            <update>2017-08-16</update>
        </key_dates>
        <title>Electron cryotomogram of Vibrio cholerae O395 N1</title>
        <authors_list>
            <author>Chang YW</author>
            <author>Kjaer A</author>
            <author>Ortega DR</author>
            <author>Kovacikova G</author>
            <author>Sutherland JA</author>
            <author>Rettberg LA</author>
            <author>Taylor RK</author>
            <author>Jensen GJ</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="false">
                    <author order="1">Chang YW</author>
                    <author order="2">Jensen GJ</author>
                    <title>Electron cryotomogram of Vibrio cholerae O395 N1</title>
                    <journal_abbreviation>To be published</journal_abbreviation>
                    <external_references type="CSD">0353</external_references>
                </journal_citation>
            </primary_citation>
            <secondary_citation>
                <journal_citation published="true">
                    <author order="3">Chang YW</author>
                    <author order="4">Kjaer A</author>
                    <author order="5">Ortega DR</author>
                    <author order="6">Kovacikova G</author>
                    <author order="7">Sutherland JA</author>
                    <author order="8">Rettberg LA</author>
                    <author order="9">Taylor RK</author>
                    <author order="10">Jensen GJ</author>
                    <title>Architecture of the Vibrio cholerae toxin-coregulated pilus machine revealed by electron cryotomography.</title>
                    <journal_abbreviation>Nat Microbiol</journal_abbreviation>
                    <country>UK</country>
                    <volume>2</volume>
                    <first_page>16269</first_page>
                    <year>2017</year>
                    <external_references type="PUBMED">28165453</external_references>
                    <external_references type="DOI">doi:10.1038/nmicrobiol.2016.269</external_references>
                    <external_references type="ISSN">2058-5276</external_references>
                </journal_citation>
            </secondary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-8492</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Subtomogram average of the non-piliated toxin-coregulated pilus machine in wild-type Vibrio cholerae cells (aligning OM-parts)</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-8493</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Subtomogram average of the non-piliated toxin-coregulated pilus machine in wild-type Vibrio cholerae cells (aligning IM-parts)</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-8494</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Subtomogram average of the piliated toxin-coregulated pilus machine in wild-type Vibrio cholerae cells (aligning OM-parts)</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-8495</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
                <details>Subtomogram average of the piliated toxin-coregulated pilus machine in wild-type Vibrio cholerae cells (aligning IM-parts)</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-3792</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>Vibrio Cholerae</name>
        <supramolecule_list>
            <cell_supramolecule supramolecule_id="1">
                <name>Vibrio Cholerae</name>
                <parent>0</parent>
                <details>Bacteria which is the causative agent of the diarrhoeal disease cholera.</details>
            </cell_supramolecule>
            <organelle_or_cellular_component_supramolecule supramolecule_id="2">
                <name>Toxin-coregulated pilus machine</name>
                <parent>1</parent>
                <details>Pilus - Bacteria which is the causative agent of the diarrhoeal disease cholera.</details>
                <natural_source database="NCBI">
                    <organism ncbi="666">Vibrio cholerae</organism>
                    <strain>Wild-type</strain>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="666">Vibrio cholerae</recombinant_organism>
                    <recombinant_strain>Wild-type</recombinant_strain>
                    <recombinant_plasmid>pMT5-ToxT</recombinant_plasmid>
                </recombinant_expression>
            </organelle_or_cellular_component_supramolecule>
            <cell_supramolecule supramolecule_id="3">
                <name>Vibrio Cholerae</name>
                <parent>1</parent>
                <details>Bacteria which is the causative agent of the diarrhoeal disease cholera.</details>
                <natural_source database="NCBI">
                    <organism ncbi="666">Vibrio cholerae</organism>
                    <strain>Wild-type</strain>
                </natural_source>
            </cell_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>tomography</method>
            <aggregation_state>cell</aggregation_state>
            <specimen_preparation_list>
                <tomography_preparation preparation_id="1">
                    <buffer>
                        <ph>7.</ph>
                        <component>
                            <concentration units="ug/ml^-l">100.0</concentration>
                            <formula>C16H19N3O4S</formula>
                            <name>Ampcillin</name>
                        </component>
                        <component>
                            <concentration units="mM">1.0</concentration>
                            <formula>C9H18O5S</formula>
                            <name>isopropyl-B-D-thiogalactoside</name>
                        </component>
                        <details>V. cholerae O395 N1 strains (wild-type or TCPM component knockout mutants) harbouring the pMT5-ToxT plasmid
were grown in 5 ml lysogeny broth (LB) medium.</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/2</model>
                        <material>COPPER</material>
                        <mesh>200</mesh>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                        </pretreatment>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE-PROPANE</cryogen_name>
                        <details />
                    </vitrification>
                    <details>After 24 h of growth, the tube of V. cholerae culture was placed on a bench at room temperature for 1 min to sediment visible microcolonies. After the pellet was formed, the supernatant was gently removed by pipetting and the pellet was resuspended in fresh LB. The cells were incubated for 15 min prior to mixing with 10 nm colloidal gold.</details>
                    <fiducial_markers_list>
                        <fiducial_marker>
                            <manufacturer>Sigma-Aldrich</manufacturer>
                            <diameter units="nanometer">10</diameter>
                        </fiducial_marker>
                    </fiducial_markers_list>
                    <sectioning>
                        <other_sectioning>NO SECTIONING</other_sectioning>
                    </sectioning>
                </tomography_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <tomography_microscopy microscopy_id="1">
                    <microscope>FEI POLARA 300</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_defocus_min units="&#181;m">6.0</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">6.0</nominal_defocus_max>
                    <nominal_magnification>27500.</nominal_magnification>
                    <specimen_holder_model>OTHER</specimen_holder_model>
                    <specialist_optics>
                        <energy_filter>
                            <name>GIF</name>
                        </energy_filter>
                    </specialist_optics>
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                            <film_or_detector_model>GATAN K2 SUMMIT (4k x 4k)</film_or_detector_model>
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                                    <height units="pixel">1918</height>
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            <tomography_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <final_reconstruction>
                    <software_list>
                        <software>
                            <name>TOMO3D</name>
                            <processing_details>SIRT reconstructions were then produced</processing_details>
                        </software>
                    </software_list>
                    <number_images_used>121</number_images_used>
                </final_reconstruction>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>IMOD</name>
                        </software>
                    </software_list>
                </ctf_correction>
            </tomography_processing>
        </structure_determination>
    </structure_determination_list>
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