<emd emdb_id="EMD-5280" 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>2011-05-02</deposition>
            <header_release>2011-05-05</header_release>
            <map_release>2012-03-08</map_release>
            <update>2012-10-03</update>
        </key_dates>
        <title>Poliovirus 135S particle and P1 Fab complex at 12-angs. resolution</title>
        <authors_list>
            <author>Lin J</author>
            <author>Cheng N</author>
            <author>Chow M</author>
            <author>Filman DJ</author>
            <author>Steven AC</author>
            <author>Hogle JM</author>
            <author>Belnap DM</author>
        </authors_list>
        <keywords>picornavirus, viral cell entry, viral uncoating, virus-antibody complex, virus-Fab complex, virus disassembly, virus uncoating, virus conformational transitions, monospecific antibody</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Lin J</author>
                    <author order="2">Cheng N</author>
                    <author order="3">Chow M</author>
                    <author order="4">Filman DJ</author>
                    <author order="5">Steven AC</author>
                    <author order="6">Hogle JM</author>
                    <author order="7">Belnap DM</author>
                    <title>An externalized polypeptide partitions between two distinct sites on genome-released poliovirus particles.</title>
                    <journal>J.VIROL.</journal>
                    <volume>85</volume>
                    <first_page>9974</first_page>
                    <last_page>9983</last_page>
                    <year>2011</year>
                    <external_references type="PUBMED">21775460</external_references>
                    <external_references type="DOI">doi:10.1128/JVI.05013-11</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Poliovirus 135S particle and P1(monospecific antibody) Fab complex</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Poliovirus 135S particle and P1(monospecific antibody) Fab complex</name>
                <oligomeric_state>135S particle icosahedral with Fab</oligomeric_state>
                <number_unique_components>2</number_unique_components>
            </sample_supramolecule>
            <virus_supramolecule supramolecule_id="1">
                <name synonym="poliovirus 135S">Human poliovirus 1 Mahoney</name>
                <details>native virus 160S is converted by heat-treatment to 135S</details>
                <sci_species_name ncbi="12081">Human poliovirus 1 Mahoney</sci_species_name>
                <natural_host database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <synonym_organism>VERTEBRATES</synonym_organism>
                </natural_host>
                <host_system database="NCBI" />
                <virus_shell shell_id="1">
                    <diameter units="&#8491;">340</diameter>
                    <triangulation>1</triangulation>
                </virus_shell>
                <virus_type>VIRION</virus_type>
                <virus_isolate>STRAIN</virus_isolate>
                <virus_enveloped>false</virus_enveloped>
                <virus_empty>false</virus_empty>
                <syn_species_name>poliovirus 135S</syn_species_name>
            </virus_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>singleParticle</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <single_particle_preparation preparation_id="1">
                    <buffer>
                        <ph>7.5</ph>
                        <details>20 mM Tris, 2 mM CaCl2</details>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <instrument>OTHER</instrument>
                        <details>Vitrification carried out in ambient atmosphere. Ethane cooled by liquid nitrogen.</details>
                        <method>Blotted manually before plunging</method>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI/PHILIPS CM200FEG</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_defocus_min units="&#181;m">0.81</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">2.24</nominal_defocus_max>
                    <nominal_magnification>38000.0</nominal_magnification>
                    <calibrated_magnification>37752.0</calibrated_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>Bsoft</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <date>1999-07-15</date>
                    <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>14</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">10</average_electron_dose_per_image>
                            <details>Defocal pairs were used.</details>
                            <bits_per_pixel>8.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                    <specimen_holder>Side entry liquid nitrogen-cooled cryo specimen holder</specimen_holder>
                    <tilt_angle_min>0</tilt_angle_min>
                    <tilt_angle_max>0</tilt_angle_max>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <ctf_correction>
                    <details>CTF and decay correction of each particle</details>
                </ctf_correction>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">12.0</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>EM3DR2</name>
                        </software>
                    </software_list>
                    <details>Reconstruction computed from focal pairs. Pairs not summed for reconstruction calculation.</details>
                    <number_images_used>10160</number_images_used>
                </final_reconstruction>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="74354">
        <file>emd_5280.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>267</col>
            <row>267</row>
            <sec>267</sec>
        </dimensions>
        <origin>
            <col>-133</col>
            <row>-133</row>
            <sec>-133</sec>
        </origin>
        <spacing>
            <x>267</x>
            <y>267</y>
            <z>267</z>
        </spacing>
        <cell>
            <a units="&#8491;">488.61002</a>
            <b units="&#8491;">488.61002</b>
            <c units="&#8491;">488.61002</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>-31.677835460000001</minimum>
            <maximum>96.891075130000004</maximum>
            <average>5.0518713</average>
            <std>17.715793609999999</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.83</x>
            <y units="&#8491;">1.83</y>
            <z units="&#8491;">1.83</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>8.6</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>This is a map of poliovirus 135S and P1 Fab complex at 12-ang resolution</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5280::::</details>
    </map>
</emd>