<emd emdb_id="EMD-1581" 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>2008-11-05</deposition>
            <header_release>2008-11-07</header_release>
            <map_release>2009-06-11</map_release>
            <update>2012-11-07</update>
        </key_dates>
        <title>Structure and functional role of dynein's microtubule-binding domain</title>
        <authors_list>
            <author>Carter AP</author>
            <author>Garbarino JE</author>
            <author>Wilson-Kubalek EM</author>
            <author>Shipley WE</author>
            <author>Cho C</author>
            <author>Milligan RA</author>
            <author>Vale RD</author>
            <author>Gibbons IR</author>
        </authors_list>
        <keywords>Assembly 1 is a helical 15 protofilaments , component name, tubulin. Assembly 2 is a monomer of the SRS-MTBD construct</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Carter AP</author>
                    <author order="2">Garbarino JE</author>
                    <author order="3">Wilson-Kubalek EM</author>
                    <author order="4">Shipley WE</author>
                    <author order="5">Cho C</author>
                    <author order="6">Milligan RA</author>
                    <author order="7">Vale RD</author>
                    <author order="8">Gibbons IR</author>
                    <title>Structure and functional role of dynein's microtubule-binding domain.</title>
                    <journal>SCIENCE</journal>
                    <volume>322</volume>
                    <first_page>1691</first_page>
                    <last_page>1695</last_page>
                    <year>2008</year>
                    <external_references type="PUBMED">19074350</external_references>
                    <external_references type="DOI">doi:10.1126/science.1164424</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Synthetic construct of dynein microtubule-binding domain (85-82) fused to seryl-tRNA synthase-monomer. Abbreviated name is SRS-MTBD-85-82</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Synthetic construct of dynein microtubule-binding domain (85-82) fused to seryl-tRNA synthase-monomer. Abbreviated name is SRS-MTBD-85-82</name>
                <details>The SRS-MTBD-85-82 construct has a 12 heptad long stalk, only the first 3 heptad repeats were visible in this map. No density was observed for the SRS.</details>
                <oligomeric_state>SRS-MTBD-85-82 monomers bound to 15 protofilaments helical microtubules</oligomeric_state>
                <number_unique_components>2</number_unique_components>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name synonym="microtubule">microtubule</name>
                <natural_source database="NCBI">
                    <organism ncbi="10090">Mus musculus</organism>
                    <synonym_organism>House Mouse</synonym_organism>
                </natural_source>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <sequence />
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>helical</method>
            <aggregation_state>filament</aggregation_state>
            <specimen_preparation_list>
                <helical_preparation preparation_id="1">
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">90</chamber_humidity>
                        <chamber_temperature units="K">4</chamber_temperature>
                        <instrument>OTHER</instrument>
                        <details>Vitrification instrument: Vitrobot</details>
                        <method>1.5 sec blot</method>
                    </vitrification>
                </helical_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <helical_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI F20</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">120</acceleration_voltage>
                    <nominal_cs units="mm">2</nominal_cs>
                    <nominal_magnification>29000.0</nominal_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <specialist_optics>
                        <energy_filter>
                            <name>Field Emission Gun</name>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">GATAN ULTRASCAN 4000 (4k x 4k)</film_or_detector_model>
                            <digitization_details>
                                <sampling_interval units="&#181;m">3.5</sampling_interval>
                            </digitization_details>
                            <number_real_images>10</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">10</average_electron_dose_per_image>
                            <bits_per_pixel>8.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                    <specimen_holder>eucentric</specimen_holder>
                </helical_microscopy>
            </microscopy_list>
            <helical_processing image_processing_id="1">
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">35.0</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>phoelix</name>
                        </software>
                    </software_list>
                </final_reconstruction>
                <ctf_correction>
                    <details>each image</details>
                </ctf_correction>
            </helical_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="8229">
        <file>emd_1581.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>143</col>
            <row>143</row>
            <sec>103</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>143</x>
            <y>143</y>
            <z>103</z>
        </spacing>
        <cell>
            <a units="&#8491;">500.5</a>
            <b units="&#8491;">500.5</b>
            <c units="&#8491;">360.5</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>-30.0</minimum>
            <maximum>52.0</maximum>
            <average>0.367653</average>
            <std>12.0869</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">3.5</x>
            <y units="&#8491;">3.5</y>
            <z units="&#8491;">3.5</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>7.0</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>This is a 3-D map of the SRS-MTBD construct</annotation_details>
        <details>::::EMDATABANK.org::::EMD-1581::::</details>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <initial_model>
                    <access_code>3ERR</access_code>
                    <chain>
                        <chain_id>A</chain_id>
                    </chain>
                </initial_model>
                <refinement_protocol>RIGID BODY FIT</refinement_protocol>
                <details>PDBEntryID_givenInChain. Protocol: Rigid body. The crystal structure was manually docked into the EM density using the chimera software package.</details>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
    </interpretation>
</emd>