<emd emdb_id="EMD-5423" 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>2012-05-21</deposition>
            <header_release>2012-06-11</header_release>
            <map_release>2012-06-11</map_release>
            <update>2012-06-11</update>
        </key_dates>
        <title>Filaments from Ignicoccus hospitalis Show Diversity of Packing in Proteins Containing N-terminal Type IV Pilin Helices</title>
        <authors_list>
            <author>Yu S</author>
            <author>Goforth C</author>
            <author>Meyer C</author>
            <author>Rachel R</author>
            <author>Wirth R</author>
            <author>Schroeder G</author>
            <author>Egelman EH</author>
        </authors_list>
        <keywords>helical polymers, Type IV pili</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Yu X</author>
                    <author order="2">Goforth C</author>
                    <author order="3">Meyer C</author>
                    <author order="4">Rachel R</author>
                    <author order="5">Wirth R</author>
                    <author order="6">Schroeder GF</author>
                    <author order="7">Egelman EH</author>
                    <title>Filaments from Ignicoccus hospitalis show diversity of packing in proteins containing N-terminal type IV pilin helices.</title>
                    <journal>J.MOL.BIOL.</journal>
                    <volume>422</volume>
                    <first_page>274</first_page>
                    <last_page>281</last_page>
                    <year>2012</year>
                    <external_references type="PUBMED">22659006</external_references>
                    <external_references type="DOI">doi:10.1016/j.jmb.2012.05.031</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>3j1r</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>Adhesion filament</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Adhesion filament</name>
                <number_unique_components>1</number_unique_components>
            </sample_supramolecule>
            <organelle_or_cellular_component_supramolecule supramolecule_id="1">
                <name>Adhesion filament</name>
                <oligomeric_state>helical filament</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <natural_source database="NCBI">
                    <organism ncbi="160233">Ignicoccus hospitalis</organism>
                </natural_source>
                <recombinant_expression database="NCBI" />
            </organelle_or_cellular_component_supramolecule>
        </supramolecule_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>
                        <instrument>HOMEMADE PLUNGER</instrument>
                    </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">2.0</nominal_cs>
                    <nominal_defocus_min units="&#181;m">1.7</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">3.4</nominal_defocus_max>
                    <nominal_magnification>55000.0</nominal_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <date>2011-01-01</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="FILM">KODAK SO-163 FILM</film_or_detector_model>
                            <digitization_details>
                                <scanner>NIKON COOLSCAN</scanner>
                            </digitization_details>
                            <number_real_images>17</number_real_images>
                            <bits_per_pixel>14.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                </helical_microscopy>
            </microscopy_list>
            <helical_processing image_processing_id="1">
                <details>The filaments were reconstructed using IHRSR.</details>
                <final_reconstruction>
                    <applied_symmetry>
                        <helical_parameters>
                            <delta_z units="&#8491;">5.3</delta_z>
                            <delta_phi units="deg">106.65</delta_phi>
                        </helical_parameters>
                    </applied_symmetry>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">7.5</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>Spider, IHRSR</name>
                        </software>
                    </software_list>
                    <details>Each image was multiplied by the CTF. The final volume was amplitude-corrected in Fourier space by dividing by the sum of the squared CTFs.</details>
                </final_reconstruction>
            </helical_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="11251">
        <file>emd_5423.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>120</col>
            <row>120</row>
            <sec>200</sec>
        </dimensions>
        <origin>
            <col>-60</col>
            <row>-60</row>
            <sec>-100</sec>
        </origin>
        <spacing>
            <x>120</x>
            <y>120</y>
            <z>200</z>
        </spacing>
        <cell>
            <a units="&#8491;">150.0</a>
            <b units="&#8491;">150.0</b>
            <c units="&#8491;">250.0</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>-0.21551475</minimum>
            <maximum>0.45967805</maximum>
            <average>0.08450025</average>
            <std>0.10978656</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.25</x>
            <y units="&#8491;">1.25</y>
            <z units="&#8491;">1.25</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.284</level>
                <source>EMDB</source>
            </contour>
        </contour_list>
        <annotation_details>Reconstruction of adhesion filament</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5423::::</details>
    </map>
</emd>