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        <current_status>
            <date>2026-02-11</date>
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                        <revision_type>INITIAL_RELEASE</revision_type>
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                        <provider>REPOSITORY</provider>
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        <sites>
            <deposition>PDBe</deposition>
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        <key_dates>
            <deposition>2025-11-17</deposition>
            <header_release>2026-02-11</header_release>
            <map_release>2026-02-11</map_release>
            <update>2026-02-11</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Not funded</funding_body>
            </grant_reference>
        </grant_support>
        <title>Cryo-EM composite structure of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</title>
        <authors_list>
            <author>Shkumatov AV</author>
            <author>Schenck S</author>
            <author>Brunner JD</author>
        </authors_list>
        <keywords>Ca2+ channel Ononetin-bound Closed conformation, MEMBRANE PROTEIN</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="false">
                    <author ORCID="0000-0001-7281-9291" order="1">Shkumatov AV</author>
                    <author ORCID="0000-0001-6639-0484" order="2">Schenck S</author>
                    <author ORCID="0000-0003-4237-9322" order="3">Brunner JD</author>
                    <title>Cryo-EM composite structure of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</title>
                    <journal_abbreviation>To Be Published</journal_abbreviation>
                    <external_references type="CSD">0353</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-53173</emdb_id>
                <relationship>
                    <other>consensus EM volume</other>
                </relationship>
                <details>Cryo-EM structure of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</details>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-55736</emdb_id>
                <relationship>
                    <other>focused EM volume</other>
                </relationship>
                <details>Focused refinement map on N-terminus of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</details>
            </emdb_reference>
        </emdb_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>9t9u</pdb_id>
                <relationship>
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            <db_reference>
                <db_name>EMDB</db_name>
                <accession_id>EMD-53173</accession_id>
                <content_type>consensus EM volume</content_type>
                <details>Cryo-EM structure of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</details>
            </db_reference>
            <db_reference>
                <db_name>EMDB</db_name>
                <accession_id>EMD-55736</accession_id>
                <content_type>focused EM volume</content_type>
                <details>Focused refinement map on N-terminus of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</details>
            </db_reference>
            <db_reference>
                <db_name>EMDB</db_name>
                <accession_id>EMD-55737</accession_id>
                <content_type>associated EM volume</content_type>
                <details>Cryo-EM composite structure of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</details>
            </db_reference>
        </other_db_list>
    </crossreferences>
    <sample>
        <name>Tetrameric assembly of mouse TRPM3 alpha 2 with inhibitor Ononetin</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>Tetrameric assembly of mouse TRPM3 alpha 2 with inhibitor Ononetin</name>
                <parent>0</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="10090">Mus musculus</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.161</theoretical>
                </molecular_weight>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>MKIAA1616 protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="10090">Mus musculus</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.16196325</theoretical>
                </molecular_weight>
                <number_of_copies>4</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MSGKKWRDAGELERGCSDREDSAESRRRSRSASRGRFAESWKRLSSKQGSTKRSGLPAQQTPAQKSWIERAFYKRECVHI
IPSTKDPHRCCCGRLIGQHVGLTPSISVLQNEKNESRLSRNDIQSEKWSISKHTQLSPTDAFGTIEFQGGGHSNKAMYVR
VSFDTKPDLLLHLMTKEWQLELPKLLISVHGGLQNFELQPKLKQVFGKGLIKAAMTTGAWIFTGGVNTGVIRHVGDALKD
HASKSRGKICTIGIAPWGIVENQEDLIGRDVVRPYQTMSNPMSKLTVLNSMHSHFILADNGTTGKYGAEVKLRRQLEKHI
SLQKINTRIGQGVPVVALIVEGGPNVISIVLEYLRDTPPVPVVVCDGSGRASDILAFGHKYSEEGGLINESLRDQLLVTI
QKTFTYTRTQAQHLFIILMECMKKKELITVFRMGSEGHQDIDLAILTALLKGANASAPDQLSLALAWNRVDIARSQIFIY
GQQWPVGSLEQAMLDALVLDRVDFVKLLIENGVSMHRFLTISRLEELYNTRHGPSNTLYHLVRDVKKGNLPPDYRISLID
IGLVIEYLMGGAYRCNYTRKRFRTLYHNLFGPKRPKALKLLGMEDDIPLRRGRKTTKKREEEVDIDLDDPEINHFPFPFH
ELMVWAVLMKRQKMALFFWQHGEEAMAKALVACKLCKAMAHEASENDMVDDISQELNHNSRDFGQLAVELLDQSYKQDEQ
LAMKLLTYELKNWSNATCLQLAVAAKHRDFIAHTCSQMLLTDMWMGRLRMRKNSGLKVILGILLPPSILSLEFKNKDDMP
YMTQAQEIHLQEKEPEEPEKPTKEKDEEDMELTAMLGRSNGESSRKKDEEEVQSRHRLIPVGRKIYEFYNAPIVKFWFYT
LAYIGYLMLFNYIVLVKMERWPSTQEWIVISYIFTLGIEKMREILMSEPGKLLQKVKVWLQEYWNVTDLIAILLFSVGMI
LRLQDQPFRSDGRVIYCVNIIYWYIRLLDIFGVNKYLGPYVMMIGKMMIDMMYFVIIMLVVLMSFGVARQAILFPNEEPS
WKLAKNIFYMPYWMIYGEVFADQIDPPCGQNETREDGKTIQLPPCKTGAWIVPAIMACYLLVANILLVNLLIAVFNNTFF
EVKSISNQVWKFQRYQLIMTFHERPVLPPPLIIFSHMTMIFQHVCCRWRKHESDQDERDYGLKLFITDDELKKVHDFEEQ
CIEEYFREKDDRFNSSNDERIRVTSERVENMSMRLEEVNEREHSMKASLQTVDIRLAQLEDLIGRMATALERLTGLERAE
SNKIRSRTSSDCTDAAYIVRQSSFNSQEGNTFKLQESIDPAGEETISPTSPTLMPRMRSHSFYSVALEVLFQGPQGTEQK
LISEEDLRGASMDEKTTGWRGGHVVEGLAGELEQLRARLEHHPQGQREP</string>
                    <external_references type="UNIPROTKB">Q69ZE8</external_references>
                </sequence>
            </protein_or_peptide>
            <ligand macromolecule_id="2">
                <name>1-[2,4-bis(oxidanyl)phenyl]-2-(4-methoxyphenyl)ethanone</name>
                <molecular_weight>
                    <theoretical units="MDa">0.000258269</theoretical>
                </molecular_weight>
                <number_of_copies>4</number_of_copies>
                <formula>A1D6M</formula>
            </ligand>
            <ligand macromolecule_id="3">
                <name>1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE</name>
                <molecular_weight>
                    <theoretical units="MDa">0.000704998</theoretical>
                </molecular_weight>
                <number_of_copies>4</number_of_copies>
                <formula>3PH</formula>
            </ligand>
            <ligand macromolecule_id="4">
                <name>(25R)-14beta,17beta-spirost-5-en-3beta-ol</name>
                <molecular_weight>
                    <theoretical units="MDa">0.00041462099999999995</theoretical>
                </molecular_weight>
                <number_of_copies>8</number_of_copies>
                <formula>YUV</formula>
            </ligand>
        </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">0.3</concentration>
                    <buffer>
                        <ph>7.5</ph>
                        <component>
                            <concentration units="mM">10.0</concentration>
                            <formula>C8H17N2NaO4S</formula>
                            <name>Hepes</name>
                        </component>
                        <component>
                            <concentration units="mM">150.0</concentration>
                            <formula>NaCl</formula>
                            <name>Sodium chloride</name>
                        </component>
                        <component>
                            <concentration units="%">0.0063</concentration>
                            <formula>C56H92O25</formula>
                            <name>Glycodiosgenin</name>
                        </component>
                        <component>
                            <concentration units="uM">10.0</concentration>
                            <formula>C15H14O4</formula>
                            <name>Ononetin</name>
                        </component>
                        <details>10 mM Hepes pH 7.5, 150 mM NaCl, 0.063% Glycodiosgenin, 10 uM Ononetin</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil R2/1</model>
                        <material>GOLD</material>
                        <mesh>300</mesh>
                        <support_film film_type_id="1">
                            <film_material>GRAPHENE</film_material>
                            <film_topology>CONTINUOUS</film_topology>
                        </support_film>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">90</chamber_humidity>
                        <chamber_temperature units="K">279.15</chamber_temperature>
                        <instrument>LEICA EM GP</instrument>
                        <details>GP2. </details>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>JEOL CRYO ARM 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="µm">0.7000000000000001</nominal_defocus_min>
                    <nominal_defocus_max units="µm">1.0</nominal_defocus_max>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K3 (6k x 4k)</film_or_detector_model>
                            <average_electron_dose_per_image units="e/Å^2">62.0</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>
                <ctf_correction>
                    <type>PHASE FLIPPING AND AMPLITUDE CORRECTION</type>
                </ctf_correction>
                <startup_model type_of_model="PDB ENTRY">
                    <pdb_model>
                        <pdb_id>8DDS</pdb_id>
                    </pdb_model>
                </startup_model>
                <final_reconstruction>
                    <resolution units="Å" res_type="BY AUTHOR">2.61</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>PHENIX</name>
                        </software>
                    </software_list>
                    <number_images_used>309057</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="500001">
        <file>emd_55737.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>500</col>
            <row>500</row>
            <sec>500</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>500</x>
            <y>500</y>
            <z>500</z>
        </spacing>
        <cell>
            <a units="Å">346.5</a>
            <b units="Å">346.5</b>
            <c units="Å">346.5</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">90.0</gamma>
        </cell>
        <axis_order>
            <fast>Z</fast>
            <medium>Y</medium>
            <slow>X</slow>
        </axis_order>
        <statistics>
            <minimum>-57.742503999999997</minimum>
            <maximum>80.426383999999999</maximum>
            <average>-0.0128396945</average>
            <std>1.0571933</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">0.693</x>
            <y units="Å">0.693</y>
            <z units="Å">0.693</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>4.46</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-55737::::</label>
        <annotation_details>Composite map of mouse TRPM3 alpha 2 in complex with antagonist Ononetin</annotation_details>
    </map>
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