<emd emdb_id="EMD-3345" version="3.0.1.1" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_1/emdb_relaxed.xsd">
    <admin>
        <current_status>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2016-02-25</deposition>
            <header_release>2016-03-23</header_release>
            <map_release>2016-03-23</map_release>
            <update>2016-05-04</update>
        </key_dates>
        <title>Hexadecameric structure of an invertebrate gap junction channel</title>
        <authors_list>
            <author>Oshima A</author>
            <author>Matsuzawa T</author>
            <author>Murata K</author>
            <author>Tani K</author>
            <author>Fujiyoshi Y</author>
        </authors_list>
        <keywords>innexin, gap junction channel, cryo-electron crystallography, three-dimensional reconstruction, two-dimensional crystal</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Oshima A</author>
                    <author order="2">Matsuzawa T</author>
                    <author order="3">Murata K</author>
                    <author order="4">Tani K</author>
                    <author order="5">Fujiyoshi Y</author>
                    <title>Hexadecameric structure of an invertebrate gap junction channel</title>
                    <journal>J Mol Biol</journal>
                    <volume>428</volume>
                    <first_page>1227</first_page>
                    <last_page>1236</last_page>
                    <year>2016</year>
                    <external_references type="PUBMED">26883891</external_references>
                    <external_references type="DOI">doi:10.1016/j.jmb.2016.02.011</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>The N-terminal deleted C. elegans innexin-6</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>The N-terminal deleted C. elegans innexin-6</name>
                <details>The sample was reconstituted in lipid bilayers.</details>
                <oligomeric_state>hexadecamer</oligomeric_state>
                <number_unique_components>1</number_unique_components>
                <molecular_weight>
                    <experimental units="MDa">0.7</experimental>
                    <theoretical units="MDa">0.7</theoretical>
                    <method>MALDI-TOF</method>
                </molecular_weight>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name synonym="INX-6">innexin-6</name>
                <natural_source database="NCBI">
                    <organism ncbi="6239">Caenorhabditis elegans</organism>
                    <synonym_organism>roundworm</synonym_organism>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.7</experimental>
                    <theoretical units="MDa">0.7</theoretical>
                </molecular_weight>
                <number_of_copies>16</number_of_copies>
                <oligomeric_state>16</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="7108">Spodoptera frugiperda</recombinant_organism>
                    <recombinant_cell>Sf9</recombinant_cell>
                    <recombinant_plasmid>pFastbac</recombinant_plasmid>
                </recombinant_expression>
                <sequence />
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>electronCrystallography</method>
            <aggregation_state>twoDArray</aggregation_state>
            <specimen_preparation_list>
                <crystallography_preparation preparation_id="1">
                    <concentration units="mg/mL">0.5</concentration>
                    <buffer>
                        <ph>7.5</ph>
                        <details>10 mM Tris (pH 7.5), 500 mM NaCl, and 1 mM EDTA</details>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_temperature units="K">120</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <method>Blot for 30 seconds before plunging</method>
                    </vitrification>
                    <details>Dialysis</details>
                    <crystal_formation>
                        <details>Dialysis</details>
                    </crystal_formation>
                </crystallography_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <crystallography_microscopy microscopy_id="1">
                    <microscope>JEOL KYOTO-3000SFF</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">1.6</nominal_cs>
                    <nominal_defocus_min units="&#181;m">0.66</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">3.459</nominal_defocus_max>
                    <nominal_magnification>40000.0</nominal_magnification>
                    <calibrated_magnification>38210.0</calibrated_magnification>
                    <specimen_holder_model>JEOL</specimen_holder_model>
                    <temperature>
                        <temperature_min units="K">4</temperature_min>
                        <temperature_max units="K">20</temperature_max>
                        <temperature_average units="K">4</temperature_average>
                    </temperature>
                    <date>2014-07-26</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                            <digitization_details>
                                <scanner>ZEISS SCAI</scanner>
                                <sampling_interval units="&#181;m">7</sampling_interval>
                            </digitization_details>
                            <number_real_images>249</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                            <detector_distance>2000</detector_distance>
                            <bits_per_pixel>8.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                    <tilt_angle_min>0</tilt_angle_min>
                    <tilt_angle_max>45</tilt_angle_max>
                    <tilt_series>
                        <axis1>
                            <min_angle units="deg">0</min_angle>
                            <max_angle units="deg">45</max_angle>
                        </axis1>
                    </tilt_series>
                </crystallography_microscopy>
            </microscopy_list>
            <crystallography_processing image_processing_id="1">
                <details>Images were processed with the MRC 2D crystal processing package.</details>
                <final_reconstruction>
                    <resolution res_type="BY AUTHOR" units="&#8491;">10.0</resolution>
                    <resolution_method>DIFFRACTION PATTERN/LAYERLINES</resolution_method>
                    <software_list>
                        <software>
                            <name>MRC</name>
                        </software>
                    </software_list>
                </final_reconstruction>
                <crystal_parameters>
                    <unit_cell>
                        <a units="&#8491;">118.5</a>
                        <b units="&#8491;">111.5</b>
                        <c units="&#8491;">320</c>
                        <gamma units="deg">121.7</gamma>
                        <alpha units="deg">90.0</alpha>
                        <beta units="deg">90.0</beta>
                    </unit_cell>
                    <plane_group>P 2</plane_group>
                </crystal_parameters>
                <ctf_correction>
                    <details>Each micrograph</details>
                </ctf_correction>
            </crystallography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="2192">
        <file>emd_3345.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>63</col>
            <row>69</row>
            <sec>129</sec>
        </dimensions>
        <origin>
            <col>-31</col>
            <row>-34</row>
            <sec>-64</sec>
        </origin>
        <spacing>
            <x>63</x>
            <y>69</y>
            <z>129</z>
        </spacing>
        <cell>
            <a units="&#8491;">168.3393</a>
            <b units="&#8491;">158.6151</b>
            <c units="&#8491;">322.5</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">121.7</gamma>
        </cell>
        <axis_order>
            <fast>Y</fast>
            <medium>X</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-7.99069977</minimum>
            <maximum>4.11950016</maximum>
            <average>-0.0170252</average>
            <std>0.98647678</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">2.4397</x>
            <y units="&#8491;">2.5177</y>
            <z units="&#8491;">2.5</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.7</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>This is a map showing a single INX-6 gap junction channel with P2 crystallographic symmetry</annotation_details>
        <details>::::EMDATABANK.org::::EMD-3345::::</details>
    </map>
</emd>