<emd emdb_id="EMD-1749" 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>2010-06-11</deposition>
            <header_release>2010-09-02</header_release>
            <map_release>2011-01-07</map_release>
            <update>2013-10-02</update>
        </key_dates>
        <title>A structure of Cx26M34Adel2-7 at 10 angstrom resolution</title>
        <authors_list>
            <author>Oshima A</author>
            <author>Tani K</author>
            <author>Toloue MM</author>
            <author>Hiroaki Y</author>
            <author>Smock A</author>
            <author>Inukai S</author>
            <author>Cone A</author>
            <author>Nicholson BJ</author>
            <author>Sosinsky GE</author>
            <author>Fujiyoshi Y</author>
        </authors_list>
        <keywords />
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Oshima A</author>
                    <author order="2">Tani K</author>
                    <author order="3">Toloue MM</author>
                    <author order="4">Hiroaki Y</author>
                    <author order="5">Smock A</author>
                    <author order="6">Inukai S</author>
                    <author order="7">Cone A</author>
                    <author order="8">Nicholson BJ</author>
                    <author order="9">Sosinsky GE</author>
                    <author order="10">Fujiyoshi Y</author>
                    <title>Asymmetric configurations and N-terminal rearrangements in connexin26 gap junction channels.</title>
                    <journal>J.MOL.BIOL.</journal>
                    <volume>405</volume>
                    <first_page>724</first_page>
                    <last_page>735</last_page>
                    <year>2011</year>
                    <external_references type="PUBMED">21094651</external_references>
                    <external_references type="DOI">doi:10.1016/j.jmb.2010.10.032</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>3iz2</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>Human connexin26</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Human connexin26</name>
                <oligomeric_state>Dodecameric</oligomeric_state>
                <number_unique_components>1</number_unique_components>
                <molecular_weight>
                    <theoretical units="MDa">0.3</theoretical>
                </molecular_weight>
            </sample_supramolecule>
            <organelle_or_cellular_component_supramolecule supramolecule_id="1">
                <name synonym="Connexin">Gap junction</name>
                <oligomeric_state>Dodecamer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <synonym_organism>Human</synonym_organism>
                </natural_source>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="7108">Spodoptera frugiperda</recombinant_organism>
                    <recombinant_plasmid>pBlueBac4.5</recombinant_plasmid>
                </recombinant_expression>
            </organelle_or_cellular_component_supramolecule>
        </supramolecule_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">2</concentration>
                    <buffer>
                        <ph>5.8</ph>
                        <details>10 mM  MES, pH 5.8, 100 mM NaCl, 50 mM MgCl2, 5 mM CaCl2, 2 mM DTT, 100 uM  carbenoxolone, 0.005% NaN3, 1% glycerol.</details>
                    </buffer>
                    <staining>
                        <type>NEGATIVE</type>
                        <details>Embedded in  ice with 10% trehalose</details>
                    </staining>
                    <grid>
                        <details>Molybdenum grid</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>NITROGEN</cryogen_name>
                        <chamber_temperature units="K">100</chamber_temperature>
                        <instrument>LEICA KF80</instrument>
                        <details>Vitrification instrument: Reichert KF-80</details>
                        <method>The grids were blotted  with filter paper and fast frozen into liquid nitrogen</method>
                    </vitrification>
                    <details>Crystals grown in three lipid bilayers</details>
                    <crystal_formation>
                        <details>Crystals grown in three lipid bilayers</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">0.544</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">2.213</nominal_defocus_max>
                    <nominal_magnification>40000.0</nominal_magnification>
                    <calibrated_magnification>39000.0</calibrated_magnification>
                    <specimen_holder_model>JEOL</specimen_holder_model>
                    <temperature>
                        <temperature_min units="K">4</temperature_min>
                        <temperature_max units="K">4</temperature_max>
                        <temperature_average units="K">4</temperature_average>
                    </temperature>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>Objective astigmatism was corrected using a quadrupole stigmator at 250,000  magnification</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <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>187</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">25</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                    <specimen_holder>Top entry helium cooled cryo stage</specimen_holder>
                    <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">
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">10.0</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>MRC</name>
                        </software>
                    </software_list>
                </final_reconstruction>
                <crystal_parameters>
                    <unit_cell>
                        <a units="&#8491;">113.4</a>
                        <b units="&#8491;">112.2</b>
                        <c units="&#8491;">300</c>
                        <gamma units="deg">90</gamma>
                        <alpha units="deg">90</alpha>
                        <beta units="deg">90</beta>
                    </unit_cell>
                    <plane_group>P 2 21 21</plane_group>
                </crystal_parameters>
                <ctf_correction>
                    <details>Each image</details>
                </ctf_correction>
            </crystallography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="1918">
        <file>emd_1749.map.gz</file>
        <symmetry>
            <space_group>18</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>57</col>
            <row>57</row>
            <sec>151</sec>
        </dimensions>
        <origin>
            <col>-28</col>
            <row>-28</row>
            <sec>-75</sec>
        </origin>
        <spacing>
            <x>56</x>
            <y>56</y>
            <z>150</z>
        </spacing>
        <cell>
            <a units="&#8491;">113.68</a>
            <b units="&#8491;">112.0</b>
            <c units="&#8491;">450.0</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>-0.00961921</minimum>
            <maximum>0.00998023</maximum>
            <average>-0.00000374</average>
            <std>0.00153846</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">2.03</x>
            <y units="&#8491;">2.0</y>
            <z units="&#8491;">3.0</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.0015</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>This is a three dimensional map of Cx26M34Adel2-7 at 10 angstrom resolution.</annotation_details>
        <details>::::EMDATABANK.org::::EMD-1749::::</details>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <initial_model>
                    <access_code>2zw3</access_code>
                    <chain>
                        <chain_id>A</chain_id>
                    </chain>
                </initial_model>
                <refinement_protocol>RIGID BODY FIT</refinement_protocol>
                <software_list>
                    <software>
                        <name>Situs</name>
                    </software>
                </software_list>
                <details>PDBEntryID_givenInChain. Protocol: Rigid body. The chain containing the amino acids from 18 to 217 corresponding to a connexin monomer was initially fitted manually into each subunit in the cryo-EM structure using program O.</details>
                <target_criteria>Linear cross correlation</target_criteria>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
        <segmentation_list>
            <segmentation>
                <file>emd_1749_msk_1.map</file>
                <mask_details format="CCP4" size_kbytes="1918">
                    <file>emd_1749_msk_1.map</file>
                    <symmetry>
                        <space_group>18</space_group>
                    </symmetry>
                    <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                    <dimensions>
                        <col>57</col>
                        <row>57</row>
                        <sec>151</sec>
                    </dimensions>
                    <origin>
                        <col>-28</col>
                        <row>-28</row>
                        <sec>-75</sec>
                    </origin>
                    <spacing>
                        <x>56</x>
                        <y>56</y>
                        <z>150</z>
                    </spacing>
                    <cell>
                        <a units="&#8491;">113.68</a>
                        <b units="&#8491;">112.0</b>
                        <c units="&#8491;">450.0</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>-0.009619209</minimum>
                        <maximum>0.009980228</maximum>
                        <average>-0.0000037443292</average>
                        <std>0.0015384576</std>
                    </statistics>
                    <pixel_spacing>
                        <x units="&#8491;">2.03</x>
                        <y units="&#8491;">2.03</y>
                        <z units="&#8491;">2.03</z>
                    </pixel_spacing>
                    <annotation_details>This is a three dimensional map of Cx26M34Adel2-7 at 10 angstrom resolution</annotation_details>
                    <details>::::EMDATABANK.org::::EMD-1749::::MASK:1::::</details>
                </mask_details>
            </segmentation>
        </segmentation_list>
    </interpretation>
</emd>
