<?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_11_7/emdb.xsd" version="3.0.11.7" emdb_id="EMD-79047">
    <admin>
        <current_status>
            <date>2026-09-30</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <revision_history>
            <revision version="1.0" date="2026-09-30">
                <change_list>
                    <metadata>
                        <revision_type>INITIAL_RELEASE</revision_type>
                        <provider>REPOSITORY</provider>
                    </metadata>
                </change_list>
            </revision>
        </revision_history>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2026-09-12</deposition>
            <header_release>2026-09-30</header_release>
            <map_release>2026-09-30</map_release>
            <update>2026-09-30</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Simons Foundation</funding_body>
                <code>00012463</code>
                <country>United States</country>
            </grant_reference>
        </grant_support>
        <title>Microtubule bundles in metaphase RPE1 spindles</title>
        <authors_list>
            <author>Conway W</author>
            <author>Bobe D</author>
            <author>Fabig G</author>
            <author>Zimyanin V</author>
            <author>de Marco A</author>
            <author>Redemann S</author>
        </authors_list>
        <keywords>spindle, microtubule, mitosis, cell division, CELL CYCLE</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Conway W</author>
                    <author order="2">Bobe D</author>
                    <author order="3">Zimyanin V</author>
                    <author order="4">Fabig G</author>
                    <author ORCID="0000-0001-6238-5653" order="5">de Marco A</author>
                    <author order="6">Redemann S</author>
                    <title>Eg5 activity and density-driven bundling organize the human metaphase mitotic spindle independently of spindle bipolarity.</title>
                    <journal_abbreviation>Biorxiv</journal_abbreviation>
                    <country>US</country>
                    <year>2026</year>
                    <external_references type="PUBMED">41648357</external_references>
                    <external_references type="DOI">doi:10.64898/2026.01.16.699769</external_references>
                    <external_references type="ISSN">2692-8205</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <other_db_list>
            <db_reference>
                <db_name>EMDB</db_name>
                <accession_id>EMD-79047</accession_id>
                <content_type>associated EM volume</content_type>
            </db_reference>
        </other_db_list>
    </crossreferences>
    <sample>
        <name>Microtubule bundles in metaphase RPE1 cells</name>
        <supramolecule_list>
            <cell_supramolecule supramolecule_id="1">
                <name>Microtubule bundles in metaphase RPE1 cells</name>
                <parent>0</parent>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </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>7.4</ph>
                        <details>DMEM</details>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">310</chamber_temperature>
                        <instrument>OTHER</instrument>
                        <details>The value given for _em_vitrification.instrument is LEICA EM GP2. This is not in a list of allowed values {'REICHERT-JUNG PLUNGER', 'OTHER', 'SPT LABTECH CHAMELEON', 'FEI VITROBOT MARK IV', 'LEICA EM GP', 'FEI VITROBOT MARK III', 'LEICA PLUNGER', 'GATAN CRYOPLUNGE 3', 'FEI VITROBOT MARK I', 'CRYOSOL VITROJET', 'SPOTITON', 'ZEISS PLUNGE FREEZER CRYOBOX', 'LEICA EM CPC', 'HOMEMADE PLUNGER', 'FEI VITROBOT MARK II', 'LEICA KF80', 'EMS-002 RAPID IMMERSION FREEZER'} so OTHER is written into the XML file.</details>
                    </vitrification>
                    <high_pressure_freezing>
                        <instrument>OTHER</instrument>
                        <details>High pressure frozen via the Waffle method on 200 mesh carbon grids.. The value given for _em_high_pressure_freezing.instrument is Wohlwend. This is not in a list of allowed values {'LEICA EM PACT', 'LEICA EM PACT2', 'BAL-TEC HPM 010', 'OTHER', 'EMS-002 RAPID IMMERSION FREEZER', 'LEICA EM HPM100'} so OTHER is written into the XML file.</details>
                    </high_pressure_freezing>
                    <cryo_protectant>5% glycerol</cryo_protectant>
                    <sectioning>
                        <focused_ion_beam>
                            <instrument>OTHER</instrument>
                            <ion>OTHER</ion>
                            <voltage>30</voltage>
                            <current>0.05</current>
                            <duration>60</duration>
                            <temperature units="K">79</temperature>
                            <initial_thickness>600</initial_thickness>
                            <final_thickness>150</final_thickness>
                            <details>Polishing item varied per sample. Lamella were hand polished after overnight automated milling. The value given for _em_focused_ion_beam.instrument is Aquilos 2. This is not in a list of allowed values {'DB235', 'OTHER'} so OTHER is written into the XML file.</details>
                        </focused_ion_beam>
                    </sectioning>
                </tomography_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <tomography_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_defocus_min units="µm">2.0</nominal_defocus_min>
                    <nominal_defocus_max units="µm">5.0</nominal_defocus_max>
                    <nominal_magnification>26000.0</nominal_magnification>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <specialist_optics>
                        <energy_filter>
                            <name>GIF Bioquantum</name>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K3 BIOCONTINUUM (6k x 4k)</film_or_detector_model>
                            <average_exposure_time units="s">1.6</average_exposure_time>
                            <average_electron_dose_per_image units="e/Å^2">3.1</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </tomography_microscopy>
            </microscopy_list>
            <tomography_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <final_reconstruction>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>4.0.1</version>
                        </software>
                    </software_list>
                    <number_images_used>90832</number_images_used>
                </final_reconstruction>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>Warp</name>
                            <version>1.10b</version>
                            <processing_details>Fit/determine CTF</processing_details>
                        </software>
                        <software>
                            <name>RELION</name>
                            <version>4.0.1</version>
                            <processing_details>Apply CTF correction</processing_details>
                        </software>
                    </software_list>
                    <type>PHASE FLIPPING AND AMPLITUDE CORRECTION</type>
                </ctf_correction>
            </tomography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="554435">
        <file>emd_79047.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>512</col>
            <row>720</row>
            <sec>376</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>512</x>
            <y>720</y>
            <z>376</z>
        </spacing>
        <cell>
            <a units="Å">13721.6</a>
            <b units="Å">19296.0</b>
            <c units="Å">10076.8</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>-0.15673694</minimum>
            <maximum>0.18557456</maximum>
            <average>0.0000035650926</average>
            <std>0.014841738</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">26.8</x>
            <y units="Å">26.8</y>
            <z units="Å">26.8</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-79047::::</label>
        <annotation_details>Tomogram of microtubules in a human metaphase mitotic spindle</annotation_details>
    </map>
</emd>
