<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_7/emdb.xsd" emdb_id="EMD-7079" version="3.0.1.7">
    <admin>
        <current_status>
            <date>2020-01-29</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2017-10-20</deposition>
            <header_release>2017-11-01</header_release>
            <map_release>2018-02-21</map_release>
            <update>2020-01-29</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)</funding_body>
                <code>P50GM103297</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)</funding_body>
                <code>R01GM080139</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)</funding_body>
                <code>P41GM103832</code>
                <country>United States</country>
            </grant_reference>
            <grant_reference>
                <funding_body>National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)</funding_body>
                <code>R01GM42561</code>
                <country>United States</country>
            </grant_reference>
        </grant_support>
        <title>Structure of the 30 kDa HIV-1 RNA Dimerization Signal by a Hybrid Cryo-EM, NMR, and Molecular Dynamics Approach</title>
        <authors_list>
            <author>Zhang K</author>
            <author>Keane S</author>
            <author>Su Z</author>
            <author>Case D</author>
            <author>Ludtke S</author>
            <author>Summers M</author>
            <author>Chiu W</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Zhang K</author>
                    <author order="2">Keane SC</author>
                    <author order="3">Su Z</author>
                    <author order="4">Irobalieva RN</author>
                    <author order="5">Chen M</author>
                    <author order="6">Van V</author>
                    <author order="7">Sciandra CA</author>
                    <author order="8">Marchant J</author>
                    <author order="9">Heng X</author>
                    <author order="10">Schmid MF</author>
                    <author order="11">Case DA</author>
                    <author order="12">Ludtke SJ</author>
                    <author order="13">Summers MF</author>
                    <author order="14">Chiu W</author>
                    <title>Structure of the 30 kDa HIV-1 RNA Dimerization Signal by a Hybrid Cryo-EM, NMR, and Molecular Dynamics Approach.</title>
                    <journal_abbreviation>Structure</journal_abbreviation>
                    <country>UK</country>
                    <volume>26</volume>
                    <first_page>490</first_page>
                    <last_page>498.e3</last_page>
                    <year>2018</year>
                    <external_references type="PUBMED">29398526</external_references>
                    <external_references type="DOI">doi:10.1016/j.str.2018.01.001</external_references>
                    <external_references type="ISSN">1878-4186</external_references>
                    <external_references type="CSD">2005</external_references>
                    <external_references type="ASTM">STRUE6</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-7079</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-7080</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
    </crossreferences>
    <sample>
        <name>30 kDa HIV-1 RNA Dimerization Signal</name>
        <supramolecule_list>
            <virus_supramolecule supramolecule_id="1">
                <name>Human immunodeficiency virus 1</name>
                <parent>0</parent>
                <sci_species_name ncbi="11676">Human immunodeficiency virus 1</sci_species_name>
                <host_system database="NCBI">
                    <recombinant_organism ncbi="11676">Human immunodeficiency virus 1</recombinant_organism>
                </host_system>
                <molecular_weight>
                    <experimental units="MDa">0.030</experimental>
                </molecular_weight>
                <virus_type>VIRION</virus_type>
                <virus_isolate>OTHER</virus_isolate>
                <virus_enveloped>true</virus_enveloped>
                <virus_empty>true</virus_empty>
            </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>8</ph>
                    </buffer>
                    <grid>
                        <pretreatment>
                            <type>GLOW DISCHARGE</type>
                        </pretreatment>
                        <details>unspecified</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <details></details>
                    </vitrification>
                    <details>HIV-1 RNA Dimerization Signal</details>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>JEOL 2200FS</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_magnification>25000.0</nominal_magnification>
                    <specimen_holder_model>GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>DIRECT ELECTRON DE-12 (4k x 3k)</film_or_detector_model>
                            <number_grids_imaged>4</number_grids_imaged>
                            <number_real_images>540</number_real_images>
                            <average_electron_dose_per_image units="e/Å^2">75.0</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                            <version>2.1</version>
                        </software>
                    </software_list>
                </ctf_correction>
                <startup_model type_of_model="OTHER">
                    <details>Starting model made from 2D class averages by EMAN2</details>
                </startup_model>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C2</point_group>
                    </applied_symmetry>
                    <resolution units="Å" res_type="BY AUTHOR">9.0</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                            <version>2.1</version>
                        </software>
                    </software_list>
                    <number_images_used>20366</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing/>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                            <version>2.1</version>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing/>
                </final_angle_assignment>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="8389">
        <file>emd_7079.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>128</col>
            <row>128</row>
            <sec>128</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>128</x>
            <y>128</y>
            <z>128</z>
        </spacing>
        <cell>
            <a units="Å">257.28</a>
            <b units="Å">257.28</b>
            <c units="Å">257.28</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>-0.27218056</minimum>
            <maximum>1.1295877</maximum>
            <average>0.0016898855</average>
            <std>0.036324795</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">2.01</x>
            <y units="Å">2.01</y>
            <z units="Å">2.01</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.42</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-7079::::</label>
        <annotation_details>DIS dimer 3D map from data set 1 (JEOL2200FS microscope, DE12 detector)</annotation_details>
    </map>
</emd>
