<emd emdb_id="EMD-5763" 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>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2013-10-03</deposition>
            <header_release>2013-10-23</header_release>
            <map_release>2014-02-19</map_release>
            <update>2014-03-19</update>
        </key_dates>
        <title>Electron cryo-microscopy of two-stranded TubZ filament from B. thuringiensis</title>
        <authors_list>
            <author>Montabana EA</author>
            <author>Agard DA</author>
        </authors_list>
        <keywords>plasmid segregation, tubulin family, bacterial cytoskeleton</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Montabana EA</author>
                    <author order="2">Agard DA</author>
                    <title>Bacterial tubulin TubZ-Bt transitions between a two-stranded intermediate and a four-stranded filament upon GTP hydrolysis.</title>
                    <journal>PROC.NAT.ACAD.SCI.USA</journal>
                    <volume>111</volume>
                    <first_page>3407</first_page>
                    <last_page>3412</last_page>
                    <year>2014</year>
                    <external_references type="PUBMED">24550513</external_references>
                    <external_references type="DOI">doi:10.1073/pnas.1318339111</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>3j4t</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>N-terminally tagged full length TubZ from pBtoxis in Bacillus thuringiensis</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>N-terminally tagged full length TubZ from pBtoxis in Bacillus thuringiensis</name>
                <oligomeric_state>Helical filament with two protofilament strands</oligomeric_state>
                <number_unique_components>1</number_unique_components>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name synonym="TubZ-Bt, TubZ">ftsZ/tubulin-related protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="1428">Bacillus thuringiensis</organism>
                    <strain>serovar israelensis</strain>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.0543729</experimental>
                </molecular_weight>
                <oligomeric_state>helical two-stranded filament</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">Q8KNP3</external_references>
                    <external_references type="INTERPRO">IPR003008</external_references>
                </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">
                    <buffer>
                        <ph>7.7</ph>
                        <details>100 mM potassium acetate, 5 mM magnesium acetate, 50 mM HEPES</details>
                    </buffer>
                    <grid>
                        <details>400 mesh copper grid with holey carbon support, glow discharged</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <instrument>FEI VITROBOT MARK III</instrument>
                        <timed_resolved_state>TubZ was preheated at 37 degrees and polymerization was initiated with saturating GTPgammaS. TubZ was then incubated for 30 seconds at room temperature before sample application and plunge-freezing.</timed_resolved_state>
                        <method>Blot 4.5 seconds before plunging.</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">200</acceleration_voltage>
                    <nominal_cs units="mm">2.2</nominal_cs>
                    <nominal_defocus_min units="&#181;m">1.5</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">4.5</nominal_defocus_max>
                    <nominal_magnification>62000.0</nominal_magnification>
                    <specimen_holder_model>OTHER</specimen_holder_model>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>Astigmatism corrected at 250,000 times magnification</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <date>2010-05-26</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">TVIPS TEMCAM-F816 (8k x 8k)</film_or_detector_model>
                            <number_real_images>348</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </helical_microscopy>
            </microscopy_list>
            <helical_processing image_processing_id="1">
                <details>The particles were aligned using IHRSR. The azimuthal angle refined to 191.84151 degrees and the rise to 22.04811 Angstroms with a right-handed helix.</details>
                <final_reconstruction>
                    <applied_symmetry>
                        <helical_parameters>
                            <delta_z units="&#8491;">22.04811</delta_z>
                            <delta_phi units="deg">168.15849</delta_phi>
                        </helical_parameters>
                    </applied_symmetry>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">10.8</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>Spider</name>
                        </software>
                    </software_list>
                    <details>Final map has been low-pass filtered to 11 Angstrom and high-pass filtered to 35 Angstrom. A B-factor of -452 Angstroms was applied using the program bfactor. A cylindrical mask of radius ~78 Angstrom has been applied.</details>
                </final_reconstruction>
                <ctf_correction>
                    <details>Whole micrograph</details>
                </ctf_correction>
            </helical_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="41595">
        <file>emd_5763.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>220</col>
            <row>220</row>
            <sec>220</sec>
        </dimensions>
        <origin>
            <col>-110</col>
            <row>-110</row>
            <sec>-110</sec>
        </origin>
        <spacing>
            <x>220</x>
            <y>220</y>
            <z>220</z>
        </spacing>
        <cell>
            <a units="&#8491;">264.66</a>
            <b units="&#8491;">264.66</b>
            <c units="&#8491;">264.66</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>-0.16868486</minimum>
            <maximum>0.18463798</maximum>
            <average>-0.00040263</average>
            <std>0.01309839</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.2030001</x>
            <y units="&#8491;">1.2030001</y>
            <z units="&#8491;">1.2030001</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.018</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>Helical Reconstruction of two-stranded TubZ-Bt bound to GTPgammaS</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5763::::</details>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <initial_model>
                    <access_code>2XKA</access_code>
                    <chain>
                        <chain_id>F</chain_id>
                    </chain>
                </initial_model>
                <refinement_protocol>RIGID BODY FIT</refinement_protocol>
                <software_list>
                    <software>
                        <name>Chimera</name>
                    </software>
                </software_list>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
        <figure_list>
            <figure>
                <file>emd_5763.jpg</file>
            </figure>
        </figure_list>
    </interpretation>
</emd>