<emd emdb_id="EMD-1561" 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>2008-09-26</deposition>
            <header_release>2008-09-29</header_release>
            <map_release>2010-04-12</map_release>
            <update>2015-08-12</update>
        </key_dates>
        <title>Electron tomography of isometrically contracting insect flight muscle</title>
        <authors_list>
            <author>Wu S</author>
            <author>Liu J</author>
            <author>Reedy MC</author>
            <author>Tregear RT</author>
            <author>Winkler H</author>
            <author>Franzini-Armstrong C</author>
            <author>Sasaki H</author>
            <author>Lucaveche C</author>
            <author>Goldman YE</author>
            <author>Reedy MK</author>
            <author>Taylor KA</author>
        </authors_list>
        <keywords>insect,muscle,myosin,troponin,tropomyosin,actin,light chains,thin filament,thick filament,electron microscopy,image processing,isometric contraction,freezing,freeze substitution,microtomy,multivariate data analysis</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Wu S</author>
                    <author order="2">Liu J</author>
                    <author order="3">Reedy MC</author>
                    <author order="4">Tregear RT</author>
                    <author order="5">Winkler H</author>
                    <author order="6">Franzini-Armstrong C</author>
                    <author order="7">Sasaki H</author>
                    <author order="8">Lucaveche C</author>
                    <author order="9">Goldman YE</author>
                    <author order="10">Reedy MK</author>
                    <author order="11">Taylor KA</author>
                    <title>Electron tomography of cryofixed, isometrically contracting insect flight muscle reveals novel actin-myosin interactions.</title>
                    <journal>PLOS ONE</journal>
                    <volume>5</volume>
                    <first_page>12643</first_page>
                    <year>2010</year>
                    <external_references type="PUBMED">20844746</external_references>
                    <external_references type="DOI">doi:10.1371/journal.pone.0012643</external_references>
                </journal_citation>
            </primary_citation>
            <secondary_citation>
                <journal_citation published="true">
                    <author order="1">Wu S</author>
                    <author order="2">Liu J</author>
                    <author order="3">Reedy MC</author>
                    <author order="4">Tregear RT</author>
                    <author order="5">Winkler H</author>
                    <author order="6">Reedy MK</author>
                    <author order="7">Taylor KA</author>
                    <title>Methods for Identifying and Averaging Variable Molecular Conformations in Tomograms of Actively Contracting Insect Flight Muscle</title>
                    <journal>J.STRUCT.BIOL.</journal>
                    <volume>168</volume>
                    <first_page>485</first_page>
                    <last_page>502</last_page>
                    <year>2009</year>
                    <external_references type="PUBMED">19698791</external_references>
                    <external_references type="DOI">doi:10.1016/J.JSB.2009.08.007</external_references>
                </journal_citation>
            </secondary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>2w49</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>Isometrically contracting asynchronous insect flight muscle</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Isometrically contracting asynchronous insect flight muscle</name>
                <details>This specimen is obtained from a quick frozen, isometrically contracting asynchronous insect flight muscle that has been freeze substituted, plastic embedded, and thin sectioned</details>
                <oligomeric_state>tissue</oligomeric_state>
                <number_unique_components>8</number_unique_components>
            </sample_supramolecule>
            <organelle_or_cellular_component_supramolecule supramolecule_id="1">
                <name synonym="muscle">myofibril</name>
                <details>The sample was enblock stained using uranyl acetate and tannic acid, and post stained with lead citrate and potassium permanganate</details>
                <oligomeric_state>muscle fibril</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <natural_source database="NCBI">
                    <organism ncbi="212017">Lethocerus indicus</organism>
                    <synonym_organism>Water bug</synonym_organism>
                    <tissue>asynchronous dorsal longitudinal flight muscle</tissue>
                    <organelle>myofibril</organelle>
                    <cellular_location>myooplasm</cellular_location>
                </natural_source>
                <recombinant_expression database="NCBI" />
            </organelle_or_cellular_component_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>tomography</method>
            <specimen_preparation_list>
                <tomography_preparation preparation_id="1">
                    <buffer>
                        <details>20 mM MOPS buffer, 5 mM NaN3, and MgCl2, ATP, CaCl2, and EGTA in varying millimolar concentrations</details>
                    </buffer>
                    <staining>
                        <type>NEGATIVE</type>
                        <details>Freeze slammed fibers were freeze-substituted in acetone using a tannic aciduranyl acetate sequence, and ultimately embedded in Araldite-506 for thin-section electron microscopy. Ultrathin (25-30 nm) longitudinal sections were stained by permanganate-lead.</details>
                    </staining>
                    <vitrification>
                        <cryogen_name>HELIUM</cryogen_name>
                        <chamber_temperature units="K">4.5</chamber_temperature>
                        <instrument>HOMEMADE PLUNGER</instrument>
                        <details>Vitrification instrument: modified Heuser Cryopress freezing head</details>
                        <method>smash against a liquid helium cooled Au-coated Cu mirror</method>
                    </vitrification>
                </tomography_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <tomography_microscopy microscopy_id="1">
                    <microscope>FEI/PHILIPS CM300FEG/T</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">2.0</nominal_cs>
                    <specimen_holder_model>OTHER</specimen_holder_model>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">TVIPS TEMCAM-F224 (2k x 2k)</film_or_detector_model>
                            <details>Images recorded on a TVIPS Tem-Cam F224 2k x 2k CCD camera</details>
                            <bits_per_pixel>16.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                    <specimen_holder>Gatan model 670 Ultrahigh tilt analytical holder</specimen_holder>
                    <tilt_series>
                        <axis1>
                            <min_angle units="deg">-72</min_angle>
                            <max_angle units="deg">72</max_angle>
                        </axis1>
                    </tilt_series>
                </tomography_microscopy>
            </microscopy_list>
            <tomography_processing image_processing_id="1">
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>PROTOMO, IMOD</name>
                        </software>
                    </software_list>
                    <details>Two tilt series at 90 degrees to one another were first independently aligned using marker-free alignment and area matching. The two resulting tomograms were then merged by patch correlation and volume warp using IMOD. Tomogram computed using weighted back projection.</details>
                    <number_images_used>70</number_images_used>
                </final_reconstruction>
            </tomography_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="588001">
        <file>emd_1561.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>1600</col>
            <row>1344</row>
            <sec>70</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>1344</x>
            <y>1600</y>
            <z>70</z>
        </spacing>
        <cell>
            <a units="&#8491;">9273.6</a>
            <b units="&#8491;">11040</b>
            <c units="&#8491;">483</c>
            <alpha units="deg">90</alpha>
            <beta units="deg">90</beta>
            <gamma units="deg">90</gamma>
        </cell>
        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-3296.960000000000036</minimum>
            <maximum>4848.859999999999673</maximum>
            <average>5.83993</average>
            <std>532.039999999999964</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">6.9</x>
            <y units="&#8491;">6.9</y>
            <z units="&#8491;">6.9</z>
        </pixel_spacing>
        <annotation_details>This is a dual axis tomogram of quick frozen, freeze This is a dual axis tomogram of quick frozen, freeze substituted, plastic embedded, thin sectioned insect flight muscle from Lethocerus sp.</annotation_details>
        <details>::::EMDATABANK.org::::EMD-1561::::</details>
    </map>
</emd>