<emd emdb_id="EMD-6439" 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>2015-08-25</deposition>
            <header_release>2015-09-23</header_release>
            <map_release>2016-06-22</map_release>
            <update>2016-07-20</update>
        </key_dates>
        <title>Helical cryo-EM reconstruction of HIV Rev filament</title>
        <authors_list>
            <author>DiMattia MA</author>
            <author>Watts NR</author>
            <author>Cheng N</author>
            <author>Huang R</author>
            <author>Heymann JB</author>
            <author>Wingfield PT</author>
            <author>Grimes JM</author>
            <author>Stuart DI</author>
            <author>Steven AC</author>
        </authors_list>
        <keywords>HIV Rev filament, helical assembly, HIV life cycle, viral RNA, nuclear export</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">DiMattia MA</author>
                    <author order="2">Watts NR</author>
                    <author order="3">Cheng N</author>
                    <author order="4">Huang R</author>
                    <author order="5">Heymann JB</author>
                    <author order="6">Grimes JM</author>
                    <author order="7">Wingfield PT</author>
                    <author order="8">Stuart DI</author>
                    <author order="9">Steven AC</author>
                    <title>The Structure of HIV-1 Rev Filaments Suggests a Bilateral Model for Rev-RRE Assembly.</title>
                    <journal>STRUCTURE</journal>
                    <volume>24</volume>
                    <first_page>1068</first_page>
                    <last_page>1080</last_page>
                    <year>2016</year>
                    <external_references type="PUBMED">27265851</external_references>
                    <external_references type="DOI">doi:10.1016/j.str.2016.04.015</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>HIV-1 Rev filament</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>HIV-1 Rev filament</name>
                <oligomeric_state>polymerized filament of Rev dimers</oligomeric_state>
                <number_unique_components>1</number_unique_components>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Rev protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="11676">Human immunodeficiency virus 1</organism>
                    <synonym_organism>HIV-1</synonym_organism>
                </natural_source>
                <oligomeric_state>helical polymer</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">P69718</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">
                    <concentration units="mg/mL">2.0</concentration>
                    <grid>
                        <details>C-flat holey carbon grids</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_temperature units="K">100</chamber_temperature>
                        <instrument>FEI VITROBOT MARK II</instrument>
                    </vitrification>
                </helical_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <helical_microscopy microscopy_id="1">
                    <microscope>FEI POLARA 300</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">300</acceleration_voltage>
                    <nominal_defocus_min units="&#181;m">0.99</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">3.09</nominal_defocus_max>
                    <nominal_magnification>20000.0</nominal_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <date>2015-02-19</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">GATAN K2 (4k x 4k)</film_or_detector_model>
                            <number_real_images>93</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">25</average_electron_dose_per_image>
                            <details>Every image is the average of 30 frames recorded by the direct electron detector.</details>
                        </image_recording>
                    </image_recording_list>
                </helical_microscopy>
            </microscopy_list>
            <helical_processing image_processing_id="1">
                <details>The particles were aligned using IHRSR.</details>
                <final_reconstruction>
                    <applied_symmetry>
                        <helical_parameters>
                            <delta_z units="&#8491;">21.2</delta_z>
                            <delta_phi units="deg">22.1</delta_phi>
                            <axial_symmetry>C6</axial_symmetry>
                        </helical_parameters>
                    </applied_symmetry>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">8.3</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>BSOFT</name>
                        </software>
                    </software_list>
                </final_reconstruction>
                <ctf_correction>
                    <details>Each particle</details>
                </ctf_correction>
            </helical_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="105470">
        <file>emd_6439.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>300</col>
            <row>300</row>
            <sec>300</sec>
        </dimensions>
        <origin>
            <col>-149</col>
            <row>-150</row>
            <sec>-150</sec>
        </origin>
        <spacing>
            <x>300</x>
            <y>300</y>
            <z>300</z>
        </spacing>
        <cell>
            <a units="&#8491;">304.65</a>
            <b units="&#8491;">304.65</b>
            <c units="&#8491;">304.65</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>-5.7130022</minimum>
            <maximum>7.22380447</maximum>
            <average>0.0</average>
            <std>0.80485672</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.0155</x>
            <y units="&#8491;">1.0155</y>
            <z units="&#8491;">1.0155</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>1.6</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>Helical Reconstruction of HIV-1 Rev filament</annotation_details>
        <details>::::EMDATABANK.org::::EMD-6439::::</details>
    </map>
</emd>