<emd emdb_id="EMD-5513" 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>2012-10-04</deposition>
            <header_release>2012-10-31</header_release>
            <map_release>2012-11-07</map_release>
            <update>2012-11-28</update>
        </key_dates>
        <title>Structure of late pre-60S ribosomal subunits with nuclear export factor Arx1 bound at the peptide exit tunnel</title>
        <authors_list>
            <author>Bradatsch B</author>
            <author>Leidig C</author>
            <author>Granneman S</author>
            <author>Gnaedig M</author>
            <author>Tollervey D</author>
            <author>Boettcher B</author>
            <author>Beckmann R</author>
            <author>Hurt E</author>
        </authors_list>
        <keywords>ribosome pre-ribosome pre-60S factors</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Bradatsch B</author>
                    <author order="2">Leidig C</author>
                    <author order="3">Granneman S</author>
                    <author order="4">Gnaedig M</author>
                    <author order="5">Tollervey D</author>
                    <author order="6">Boettcher B</author>
                    <author order="7">Beckmann R</author>
                    <author order="8">Hurt E</author>
                    <title>Structure of the pre-60S ribosomal subunit with nuclear export factor Arx1 bound at the exit tunnel.</title>
                    <journal>NAT.STRUCT.MOL.BIOL.</journal>
                    <volume>19</volume>
                    <first_page>1234</first_page>
                    <last_page>1241</last_page>
                    <year>2012</year>
                    <external_references type="PUBMED">23142978</external_references>
                    <external_references type="DOI">doi:10.1038/nsmb.2438</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>3j2i</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>pre-60S particle</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>pre-60S particle</name>
                <number_unique_components>1</number_unique_components>
                <molecular_weight>
                    <experimental units="MDa">1.3</experimental>
                    <theoretical units="MDa">1.3</theoretical>
                </molecular_weight>
            </sample_supramolecule>
            <complex_supramolecule supramolecule_id="1">
                <name synonym="pre-60S">Pre-60S particle</name>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <natural_source database="NCBI">
                    <organism ncbi="4932">Saccharomyces cerevisiae</organism>
                    <synonym_organism>yeast</synonym_organism>
                </natural_source>
                <recombinant_expression database="NCBI" />
                <ribosome-details>ribosome-eukaryote: LSU 60S</ribosome-details>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name synonym="Ebp1">Proliferation-associated protein 2G4</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                    <synonym_organism>human</synonym_organism>
                </natural_source>
                <number_of_copies>1</number_of_copies>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <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>7.0</ph>
                        <details>50 mM Tris-HCl, pH 7.5, 100 mM NaCl, 1.5 mM or 5 mM MgCl2, 0.075% (v/v) NP-40</details>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">95</chamber_humidity>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <method>Blot for 2 seconds before plunging</method>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>FEI TITAN KRIOS</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">200</acceleration_voltage>
                    <calibrated_magnification>95000.0</calibrated_magnification>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <date>2012-04-06</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">GENERIC CCD</film_or_detector_model>
                            <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <details>The particles were selected using an automatic selection program</details>
                <ctf_correction>
                    <details>Subvolumes</details>
                </ctf_correction>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">11.9</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>Signature, Spider, Chimera</name>
                        </software>
                    </software_list>
                    <number_images_used>100000</number_images_used>
                </final_reconstruction>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="194673">
        <file>emd_5513.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>368</col>
            <row>368</row>
            <sec>368</sec>
        </dimensions>
        <origin>
            <col>-184</col>
            <row>-184</row>
            <sec>-183</sec>
        </origin>
        <spacing>
            <x>368</x>
            <y>368</y>
            <z>368</z>
        </spacing>
        <cell>
            <a units="&#8491;">455.4</a>
            <b units="&#8491;">455.4</b>
            <c units="&#8491;">455.4</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>-1.01602316</minimum>
            <maximum>3.0163188</maximum>
            <average>-0.00301202</average>
            <std>0.21357282</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.2375</x>
            <y units="&#8491;">1.2375</y>
            <z units="&#8491;">1.2375</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.5</level>
                <source>EMDB</source>
            </contour>
        </contour_list>
        <annotation_details>Reconstruction of pre-60S ribosomal subunits with nuclear export factor Arx1 bound at the peptide exit tunnel</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5513::::</details>
    </map>
    <interpretation>
        <figure_list>
            <figure>
                <file>emd_5513.png</file>
            </figure>
        </figure_list>
    </interpretation>
</emd>