<emd emdb_id="EMD-5760" 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>2013-09-27</deposition>
            <header_release>2013-10-23</header_release>
            <map_release>2013-12-11</map_release>
            <update>2013-12-11</update>
        </key_dates>
        <title>Hepatitis C Virus E2 Envelope Glycoprotein Core Structure</title>
        <authors_list>
            <author>Nieusma T</author>
            <author>Kong L</author>
            <author>Giang E</author>
            <author>Kadam RU</author>
            <author>Cogburn KE</author>
            <author>Hua Y</author>
            <author>Dai X</author>
            <author>Stanfield RL</author>
            <author>Burton DR</author>
            <author>Wilson IA</author>
            <author>Law M</author>
            <author>Ward AB</author>
        </authors_list>
        <keywords>hepatitis C, virus, envelope, glycoprotein</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Kong L</author>
                    <author order="2">Giang E</author>
                    <author order="3">Nieusma T</author>
                    <author order="4">Kadam RU</author>
                    <author order="5">Cogburn KE</author>
                    <author order="6">Hua Y</author>
                    <author order="7">Dai X</author>
                    <author order="8">Stanfield RL</author>
                    <author order="9">Burton DR</author>
                    <author order="10">Ward AB</author>
                    <author order="11">Wilson IA</author>
                    <author order="12">Law M</author>
                    <title>Hepatitis C virus E2 envelope glycoprotein core structure.</title>
                    <journal>SCIENCE</journal>
                    <volume>342</volume>
                    <first_page>1090</first_page>
                    <last_page>1094</last_page>
                    <year>2013</year>
                    <external_references type="PUBMED">24288331</external_references>
                    <external_references type="DOI">doi:10.1126/science.1243876</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>E2 glycoprotein bound to AR3A Fab and AR2A Fab</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>E2 glycoprotein bound to AR3A Fab and AR2A Fab</name>
                <number_unique_components>3</number_unique_components>
                <molecular_weight>
                    <theoretical units="MDa">0.146</theoretical>
                </molecular_weight>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name synonym="E2">E2 envelope glycoprotein</name>
                <natural_source database="NCBI">
                    <organism ncbi="11103">Hepatitis C virus</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.046</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="9606">Homo sapiens</recombinant_organism>
                    <recombinant_cell>HEK 293T</recombinant_cell>
                    <recombinant_plasmid>pCMV-Tag4A-tpa</recombinant_plasmid>
                </recombinant_expression>
                <sequence />
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>Antigen-binding fragment of antibody AR3A</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <synonym_organism>Human</synonym_organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.050</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                    <recombinant_strain>BL21(DE3)</recombinant_strain>
                    <recombinant_plasmid>pComb3H</recombinant_plasmid>
                </recombinant_expression>
                <sequence />
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>Antigen-binding fragment of antibody AR2A</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <synonym_organism>Human</synonym_organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.050</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                    <recombinant_strain>BL21(DE3)</recombinant_strain>
                    <recombinant_plasmid>pComb3H</recombinant_plasmid>
                </recombinant_expression>
                <sequence />
            </protein_or_peptide>
        </macromolecule_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">
                    <staining>
                        <type>NEGATIVE</type>
                        <details>negative stain with uranyl formate</details>
                    </staining>
                    <grid>
                        <details>400 mesh copper</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>NONE</cryogen_name>
                        <instrument>OTHER</instrument>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI SPIRIT</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>LAB6</electron_source>
                    <acceleration_voltage units="kV">120</acceleration_voltage>
                    <nominal_defocus_min units="&#181;m">1.0</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">1.0</nominal_defocus_max>
                    <nominal_magnification>52000.0</nominal_magnification>
                    <specimen_holder_model>SIDE ENTRY, EUCENTRIC</specimen_holder_model>
                    <temperature>
                        <temperature_average units="K">298</temperature_average>
                    </temperature>
                    <date>2013-06-12</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">TVIPS TEMCAM-F416 (4k x 4k)</film_or_detector_model>
                            <number_real_images>452</number_real_images>
                        </image_recording>
                    </image_recording_list>
                    <tilt_angle_min>0</tilt_angle_min>
                    <tilt_angle_max>55</tilt_angle_max>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <details>Particles were selected using automatic (difference-of-Gaussians) picking followed by reference-free classification to eliminate noisy picks or non-target aggregation states.</details>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">20.0</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>Appion, Spider, Xmipp, Eman1, Eman2</name>
                        </software>
                    </software_list>
                    <number_images_used>27050</number_images_used>
                </final_reconstruction>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="3457">
        <file>emd_5760.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>96</col>
            <row>96</row>
            <sec>96</sec>
        </dimensions>
        <origin>
            <col>-23</col>
            <row>-23</row>
            <sec>-23</sec>
        </origin>
        <spacing>
            <x>96</x>
            <y>96</y>
            <z>96</z>
        </spacing>
        <cell>
            <a units="&#8491;">196.79999</a>
            <b units="&#8491;">196.79999</b>
            <c units="&#8491;">196.79999</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>-5.24226284</minimum>
            <maximum>10.52967072</maximum>
            <average>0.00000713</average>
            <std>0.80545229</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">2.05</x>
            <y units="&#8491;">2.05</y>
            <z units="&#8491;">2.05</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>1.84</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>E2 glycoprotein bound to AR3A Fab and AR2A Fab, single particle reconstruction</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5760::::</details>
    </map>
</emd>