<emd emdb_id="EMD-6001" 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>2014-07-23</deposition>
            <header_release>2014-08-13</header_release>
            <map_release>2014-11-12</map_release>
            <update>2014-12-24</update>
        </key_dates>
        <title>Fako virus capsid: a newly-isolated reovirus has the simplest genomic and structural organization of any reovirus</title>
        <authors_list>
            <author>Auguste AJ</author>
            <author>Kaelber JT</author>
            <author>Fokam EB</author>
            <author>Guzman H</author>
            <author>Carrington CVF</author>
            <author>Erasmus JH</author>
            <author>Kamgang B</author>
            <author>Popov VL</author>
            <author>Jakana J</author>
            <author>Liu X</author>
            <author>Wood TG</author>
            <author>Widen SG</author>
            <author>Vasilakis N</author>
            <author>Tesh RB</author>
            <author>Chiu W</author>
            <author>Weaver SC</author>
        </authors_list>
        <keywords>virus, Reoviridae, Spinareovirinae, Dinovernavirus, Fako virus, FAKV, dsRNA virus, invertebrate virus, reovirus, Aedes, dsRNA</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Auguste AJ</author>
                    <author order="2">Kaelber JT</author>
                    <author order="3">Fokam EB</author>
                    <author order="4">Guzman H</author>
                    <author order="5">Carrington CVF</author>
                    <author order="6">Erasmus JH</author>
                    <author order="7">Kamgang B</author>
                    <author order="8">Popov VL</author>
                    <author order="9">Jakana J</author>
                    <author order="10">Liu X</author>
                    <author order="11">Wood TG</author>
                    <author order="12">Widen SG</author>
                    <author order="13">Vasilakis N</author>
                    <author order="14">Tesh RB</author>
                    <author order="15">Chiu W</author>
                    <author order="16">Weaver SC</author>
                    <title>A newly-isolated reovirus has the simplest genomic and structural organization of any reovirus.</title>
                    <journal>J.VIROL.</journal>
                    <volume>89</volume>
                    <first_page>676</first_page>
                    <last_page>687</last_page>
                    <year>2015</year>
                    <external_references type="PUBMED">25355879</external_references>
                    <external_references type="DOI">doi:10.1128/JVI.02264-14</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Fako virus genome-free capsid</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Fako virus genome-free capsid</name>
                <details>The sample was derived from whole virions.</details>
                <oligomeric_state>icosahedral capsid of 60 asymmetric units with 4 proteins each</oligomeric_state>
                <number_unique_components>1</number_unique_components>
                <molecular_weight>
                    <theoretical units="MDa">25</theoretical>
                </molecular_weight>
            </sample_supramolecule>
            <virus_supramolecule supramolecule_id="1">
                <name>Fako virus</name>
                <sci_species_name>Fako virus</sci_species_name>
                <natural_host database="NCBI">
                    <organism ncbi="7160">Aedes albopictus</organism>
                    <synonym_organism>INVERTEBRATES</synonym_organism>
                </natural_host>
                <host_system database="NCBI">
                    <recombinant_organism ncbi="7159">Aedes aegypti</recombinant_organism>
                    <recombinant_cell>C6/36</recombinant_cell>
                </host_system>
                <molecular_weight>
                    <theoretical units="MDa">25</theoretical>
                </molecular_weight>
                <virus_shell shell_id="1">
                    <diameter units="&#8491;">580</diameter>
                    <triangulation>1</triangulation>
                </virus_shell>
                <virus_type>VIRUS-LIKE PARTICLE</virus_type>
                <virus_isolate>SPECIES</virus_isolate>
                <virus_enveloped>false</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>7.8</ph>
                        <details>10 mM Tris-HCl, 1 mM EDTA, 0.1 M NaCl</details>
                    </buffer>
                    <grid>
                        <details>200 mesh copper Quantifoil R 2/2, glow discharged</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <method>Blot for 3.5 seconds.</method>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>JEOL 3200FSC</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_cs units="mm">4.1</nominal_cs>
                    <nominal_magnification>20000.0</nominal_magnification>
                    <calibrated_magnification>22964.0</calibrated_magnification>
                    <specimen_holder_model>JEOL 3200FSC CRYOHOLDER</specimen_holder_model>
                    <temperature>
                        <temperature_average units="K">86.5</temperature_average>
                    </temperature>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>Objective lens twofold astigmatism was corrected.</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <specialist_optics>
                        <energy_filter>
                            <name>Omega filter</name>
                        </energy_filter>
                    </specialist_optics>
                    <details>Damage correction and motion correction was performed.</details>
                    <date>2013-12-12</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">OTHER</film_or_detector_model>
                            <number_real_images>71</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">40</average_electron_dose_per_image>
                            <bits_per_pixel>32.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <ctf_correction>
                    <details>CTF fit for each frame, corrected for each particle</details>
                </ctf_correction>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">7.8</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>MPSA, EMAN2</name>
                        </software>
                    </software_list>
                    <number_images_used>1385</number_images_used>
                </final_reconstruction>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="128001">
        <file>emd_6001.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>320</col>
            <row>320</row>
            <sec>320</sec>
        </dimensions>
        <origin>
            <col>-160</col>
            <row>-160</row>
            <sec>-160</sec>
        </origin>
        <spacing>
            <x>320</x>
            <y>320</y>
            <z>320</z>
        </spacing>
        <cell>
            <a units="&#8491;">889.6</a>
            <b units="&#8491;">889.6</b>
            <c units="&#8491;">889.6</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>-1.18680322</minimum>
            <maximum>2.12791181</maximum>
            <average>0.02009096</average>
            <std>0.17021477</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">2.78</x>
            <y units="&#8491;">2.78</y>
            <z units="&#8491;">2.78</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.6</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>Single-particle reconstruction of Fako virus genome-free capsids</annotation_details>
        <details>::::EMDATABANK.org::::EMD-6001::::</details>
    </map>
    <interpretation>
        <figure_list>
            <figure>
                <file>emd_6001.png</file>
            </figure>
        </figure_list>
    </interpretation>
</emd>