<emd emdb_id="EMD-5967" 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>2014-05-19</deposition>
            <header_release>2014-07-30</header_release>
            <map_release>2014-07-30</map_release>
            <update>2014-07-30</update>
        </key_dates>
        <title>Single particle EM reveals plasticity of interactions between the adenovirus penton base and integrin alphaV-beta3</title>
        <authors_list>
            <author>Veesler D</author>
            <author>Cupelli K</author>
            <author>Burger M</author>
            <author>Graber P</author>
            <author>Stehle T</author>
            <author>Johnson JE</author>
        </authors_list>
        <keywords>adenovirus, integrin, virus infection, electron microscopy, fluorescence correlation microscopy</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Veesler D</author>
                    <author order="2">Cupelli K</author>
                    <author order="3">Burger M</author>
                    <author order="4">Graber P</author>
                    <author order="5">Stehle T</author>
                    <author order="6">Johnson JE</author>
                    <title>Single particle EM reveals plasticity of interactions between the adenovirus penton base and integrin alphaV-beta3</title>
                    <journal>PROC.NAT.ACAD.SCI.USA</journal>
                    <volume>111</volume>
                    <first_page>8815</first_page>
                    <last_page>8819</last_page>
                    <year>2014</year>
                    <external_references type="PUBMED">24889614</external_references>
                    <external_references type="DOI">doi:10.1073/pnas.1404575111</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Human alphaV-beta3 integrin ectodomain in complex with the monomeric RGD-loop containing insertion domain of the adenovirus 9 penton base subunit</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Human alphaV-beta3 integrin ectodomain in complex with the monomeric RGD-loop containing insertion domain of the adenovirus 9 penton base subunit</name>
                <oligomeric_state>heterotrimer</oligomeric_state>
                <number_unique_components>2</number_unique_components>
                <molecular_weight>
                    <theoretical units="MDa">0.21</theoretical>
                </molecular_weight>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>alphaV-beta3 integrin ectodomain</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <synonym_organism>Human</synonym_organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.18</theoretical>
                </molecular_weight>
                <details>Second UniProt identifier: P05106</details>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>heterodimer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="7108">Spodoptera frugiperda</recombinant_organism>
                    <recombinant_cell>Sf9</recombinant_cell>
                    <recombinant_plasmid>pFastBacDual</recombinant_plasmid>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">P06756</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>adenovirus 9 penton base</name>
                <natural_source database="NCBI">
                    <organism ncbi="10527">Human adenovirus 9</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.03</theoretical>
                </molecular_weight>
                <details>Only the monomeric RGD-loop containing insertion domain of the adenovirus 9 penton base subunit is present in the construct used (residues 116 to 360).</details>
                <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>Rosetta 2 (DE3)</recombinant_strain>
                    <recombinant_plasmid>pET15b</recombinant_plasmid>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">Q9EA46</external_references>
                </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">
                    <buffer>
                        <ph>7.5</ph>
                        <details>10 mM Tris, 150 mM NaCl, 2 mM MnCl2</details>
                    </buffer>
                    <staining>
                        <type>NEGATIVE</type>
                        <details>2% uranyl formate</details>
                    </staining>
                    <grid>
                        <details>C-flat 2/0.5 grids overlaid with a thin layer of carbon</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 12</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_cs units="mm">2.2</nominal_cs>
                    <nominal_defocus_min units="&#181;m">0.1</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">2.8</nominal_defocus_max>
                    <nominal_magnification>76097.0</nominal_magnification>
                    <specimen_holder_model>OTHER</specimen_holder_model>
                    <date>2013-05-30</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>1600</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">24</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <details>Random conical tilt reconstruction</details>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">53.0</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>Spider</name>
                        </software>
                    </software_list>
                    <number_images_used>515</number_images_used>
                </final_reconstruction>
                <final_two_d_classification>
                    <number_classes>1</number_classes>
                </final_two_d_classification>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
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        <file>emd_5967.map.gz</file>
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            <alpha units="deg">90.0</alpha>
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        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
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        <annotation_details>Reconstruction of the human alphaV-beta3 integrin in complex with the monomeric RGD-loop containing insertion domain of the adenovirus 9 penton base subunit</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5967::::</details>
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