<emd emdb_id="EMD-1704" 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>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2010-02-20</deposition>
            <header_release>2010-03-19</header_release>
            <map_release>2010-06-01</map_release>
            <update>2012-10-10</update>
        </key_dates>
        <title>Sub-tomogram average of Tula Hantavirus membrane glycoprotein lattice</title>
        <authors_list>
            <author>Huiskonen JT</author>
            <author>Hepojoki J</author>
            <author>Laurinmaki P</author>
            <author>Vaheri A</author>
            <author>Lankinen H</author>
            <author>Butcher SJ</author>
            <author>Grunewald K</author>
        </authors_list>
        <keywords>Tula, hantavirus, bunyavirus, bunyaviridae, glycoprotein N, glycoprotein G, membrane</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Huiskonen JT</author>
                    <author order="2">Hepojoki J</author>
                    <author order="3">Laurinmaki P</author>
                    <author order="4">Vaheri A</author>
                    <author order="5">Lankinen H</author>
                    <author order="6">Butcher SJ</author>
                    <author order="7">Grunewald K</author>
                    <title>Electron cryotomography of Tula hantavirus suggests a unique assembly paradigm for enveloped viruses.</title>
                    <journal>J.VIROL.</journal>
                    <volume>84</volume>
                    <first_page>4889</first_page>
                    <last_page>4897</last_page>
                    <year>2010</year>
                    <external_references type="PUBMED">20219926</external_references>
                    <external_references type="DOI">doi:10.1128/JVI.00057-10</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Tula hantavirus</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Tula hantavirus</name>
                <number_unique_components>1</number_unique_components>
            </sample_supramolecule>
            <virus_supramolecule supramolecule_id="1">
                <name synonym="Tula hantavirus">Hantavirus</name>
                <sci_species_name ncbi="11598">Hantavirus</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">
                    <name>Glycoprotein shell</name>
                </virus_shell>
                <virus_type>VIRION</virus_type>
                <virus_isolate>SPECIES</virus_isolate>
                <virus_enveloped>true</virus_enveloped>
                <virus_empty>false</virus_empty>
                <syn_species_name>Tula hantavirus</syn_species_name>
            </virus_supramolecule>
        </supramolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>subtomogramAveraging</method>
            <specimen_preparation_list>
                <subtomogram_averaging_preparation preparation_id="1">
                    <buffer>
                        <ph>7.4</ph>
                        <details>10 mM HEPES, 135 mM NaCl</details>
                    </buffer>
                    <grid>
                        <details>Cflat R2/2</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_temperature units="K">77</chamber_temperature>
                        <instrument>HOMEMADE PLUNGER</instrument>
                        <details>Vitrification instrument: MPI custom plunger</details>
                        <method>Blot 4 seconds before plunging</method>
                    </vitrification>
                </subtomogram_averaging_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <subtomogram_averaging_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_cs units="mm">2.0</nominal_cs>
                    <nominal_defocus_min units="&#181;m">5.0</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">6.0</nominal_defocus_max>
                    <nominal_magnification>50000.0</nominal_magnification>
                    <calibrated_magnification>67300.0</calibrated_magnification>
                    <specimen_holder_model>OTHER</specimen_holder_model>
                    <temperature>
                        <temperature_average units="K">77</temperature_average>
                    </temperature>
                    <specialist_optics>
                        <energy_filter>
                            <name>GIF 2002</name>
                            <lower_energy_threshold units="eV">0.0</lower_energy_threshold>
                            <upper_energy_threshold units="eV">10.0</upper_energy_threshold>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">GENERIC CCD</film_or_detector_model>
                            <digitization_details>
                                <sampling_interval units="&#181;m">30</sampling_interval>
                            </digitization_details>
                            <average_electron_dose_per_image units="e/&#8491;^2">100</average_electron_dose_per_image>
                            <bits_per_pixel>8.</bits_per_pixel>
                        </image_recording>
                    </image_recording_list>
                    <specimen_holder>Polara</specimen_holder>
                    <tilt_series>
                        <axis1>
                            <min_angle units="deg">-60</min_angle>
                            <max_angle units="deg">60</max_angle>
                        </axis1>
                    </tilt_series>
                </subtomogram_averaging_microscopy>
            </microscopy_list>
            <subtomogram_averaging_processing image_processing_id="1">
                <details>Average number of tilts used in the 3D reconstructions: 61. Average tomographic tilt angle increment: 2.</details>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">36.0</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>Bsoft, jsubtomo</name>
                        </software>
                    </software_list>
                    <details>Sub-tomogram average calculated using 2,353 aligned spikes</details>
                </final_reconstruction>
            </subtomogram_averaging_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="2849">
        <file>emd_1704.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>90</col>
            <row>90</row>
            <sec>90</sec>
        </dimensions>
        <origin>
            <col>-45</col>
            <row>-45</row>
            <sec>-45</sec>
        </origin>
        <spacing>
            <x>90</x>
            <y>90</y>
            <z>90</z>
        </spacing>
        <cell>
            <a units="&#8491;">401.4</a>
            <b units="&#8491;">401.4</b>
            <c units="&#8491;">401.4</c>
            <alpha units="deg">90</alpha>
            <beta units="deg">90</beta>
            <gamma units="deg">90</gamma>
        </cell>
        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-1.02406</minimum>
            <maximum>2.14897</maximum>
            <average>0.19917</average>
            <std>0.28403</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">4.46</x>
            <y units="&#8491;">4.46</y>
            <z units="&#8491;">4.46</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.5</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>Sub-tomogram average of Tula Hantavirus membrane glycoprotein lattice</annotation_details>
        <details>::::EMDATABANK.org::::EMD-1704::::</details>
    </map>
</emd>