<emd emdb_id="EMD-2799" 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>2014-10-15</deposition>
            <header_release>2014-10-22</header_release>
            <map_release>2015-01-21</map_release>
            <update>2016-02-17</update>
        </key_dates>
        <title>Cryo-EM structure of gamma-TuSC oligomers in a closed conformation</title>
        <authors_list>
            <author>Kollman JM</author>
            <author>Greenberg CH</author>
            <author>Li S</author>
            <author>Moritz M</author>
            <author>Zelter A</author>
            <author>Fong K</author>
            <author>Fernandez J-J</author>
            <author>Sali A</author>
            <author>Kilmartin J</author>
            <author>Davis TN</author>
            <author>Agard DA</author>
        </authors_list>
        <keywords>Microtubule nucleation, gamma tubulin</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Kollman JM</author>
                    <author order="2">Greenberg CH</author>
                    <author order="3">Li S</author>
                    <author order="4">Moritz M</author>
                    <author order="5">Zelter A</author>
                    <author order="6">Fong KK</author>
                    <author order="7">Fernandez JJ</author>
                    <author order="8">Sali A</author>
                    <author order="9">Kilmartin J</author>
                    <author order="10">Davis TN</author>
                    <author order="11">Agard DA</author>
                    <title>Ring closure activates yeast gamma-TuRC for species-specific microtubule nucleation</title>
                    <journal>NAT.STRUCT.MOL.BIOL.</journal>
                    <volume>22</volume>
                    <first_page>132</first_page>
                    <last_page>137</last_page>
                    <year>2015</year>
                    <external_references type="PUBMED">25599398</external_references>
                    <external_references type="DOI">doi:10.1038/nsmb.2953</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>5flz</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>Recombinant yeast gamma-TuSC mutant S58C/G288C</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Recombinant yeast gamma-TuSC mutant S58C/G288C</name>
                <oligomeric_state>heteropentamer</oligomeric_state>
                <number_unique_components>4</number_unique_components>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name synonym="tub4">gamma tubulin S58C/G288C</name>
                <natural_source database="NCBI">
                    <organism ncbi="4932">Saccharomyces cerevisiae</organism>
                    <synonym_organism>Baker's yeast</synonym_organism>
                    <cellular_location>spindle pole body</cellular_location>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.055</theoretical>
                </molecular_weight>
                <details>Cysteine residues were introduced at positions 58 and 288 to promote crosslinking of the helical complex.</details>
                <number_of_copies>2</number_of_copies>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="10469">unidentified baculovirus</recombinant_organism>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">P53378</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name synonym="Spc97">GCP2</name>
                <natural_source database="NCBI">
                    <organism ncbi="4932">Saccharomyces cerevisiae</organism>
                    <synonym_organism>Baker's yeast</synonym_organism>
                    <cellular_location>spindle pole body</cellular_location>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.097</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="10469">unidentified baculovirus</recombinant_organism>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">P38863</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name synonym="Spc98">GCP3</name>
                <natural_source database="NCBI">
                    <organism ncbi="4932">Saccharomyces cerevisiae</organism>
                    <synonym_organism>Baker's yeast</synonym_organism>
                    <cellular_location>spindle pole body</cellular_location>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.098</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="10469">unidentified baculovirus</recombinant_organism>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">P53540</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="4">
                <name>Spc110 (1-220)</name>
                <natural_source database="NCBI">
                    <organism ncbi="4932">Saccharomyces cerevisiae</organism>
                    <synonym_organism>Baker's yeast</synonym_organism>
                    <cellular_location>spindle pole body</cellular_location>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.025</theoretical>
                </molecular_weight>
                <details>Residues 1-220 of Spc110 were expressed with an N-terminal GST tagged, which was cleaved off during purification.</details>
                <number_of_copies>2</number_of_copies>
                <oligomeric_state>dimer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="10469">unidentified baculovirus</recombinant_organism>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">P32380</external_references>
                </sequence>
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>helical</method>
            <aggregation_state>filament</aggregation_state>
            <specimen_preparation_list>
                <helical_preparation preparation_id="1">
                    <concentration units="mg/mL">2</concentration>
                    <buffer>
                        <ph>7.6</ph>
                        <details>40 mM Hepes PH 7.6, 100 mM KCl, 1 mM EGTA, 1mM MgCl2, 1 mM oxidized glutathione</details>
                    </buffer>
                    <grid>
                        <details>400 mesh C-FLAT 2/2 grid</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">90</chamber_humidity>
                        <instrument>FEI VITROBOT MARK I</instrument>
                        <method>Blot for 2-5 seconds before plunging</method>
                    </vitrification>
                </helical_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <helical_microscopy microscopy_id="1">
                    <microscope>FEI TECNAI F20</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>
                    <nominal_cs units="mm">2.12</nominal_cs>
                    <nominal_defocus_min units="&#181;m">0.8</nominal_defocus_min>
                    <nominal_defocus_max units="&#181;m">2.0</nominal_defocus_max>
                    <calibrated_magnification>94000.0</calibrated_magnification>
                    <specimen_holder_model>GATAN LIQUID NITROGEN</specimen_holder_model>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>Objective astigmatism corrected at 135,000 time magnifiaction</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <date>2011-05-25</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">TVIPS TEMCAM-F816 (8k x 8k)</film_or_detector_model>
                            <number_real_images>364</number_real_images>
                            <average_electron_dose_per_image units="e/&#8491;^2">20</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </helical_microscopy>
            </microscopy_list>
            <helical_processing image_processing_id="1">
                <details>IHRSR was carried out in SPIDER, using hsearch_lorentz to search for helical symmetry parameters in unsymmetrized maps.</details>
                <final_reconstruction>
                    <applied_symmetry>
                        <helical_parameters>
                            <delta_z units="&#8491;">22.2</delta_z>
                            <delta_phi units="deg">54.3</delta_phi>
                            <axial_symmetry>C1</axial_symmetry>
                        </helical_parameters>
                    </applied_symmetry>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">6.9</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>SPIDER, hsearch_lorentz, EMAN1, ctffind</name>
                        </software>
                    </software_list>
                </final_reconstruction>
                <ctf_correction>
                    <details>each micrograph</details>
                </ctf_correction>
            </helical_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="37221">
        <file>emd_2799.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>212</col>
            <row>212</row>
            <sec>212</sec>
        </dimensions>
        <origin>
            <col>-106</col>
            <row>-106</row>
            <sec>-106</sec>
        </origin>
        <spacing>
            <x>212</x>
            <y>212</y>
            <z>212</z>
        </spacing>
        <cell>
            <a units="&#8491;">398.56</a>
            <b units="&#8491;">398.56</b>
            <c units="&#8491;">398.56</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>-1.94397974</minimum>
            <maximum>3.0450983</maximum>
            <average>0.0</average>
            <std>0.31405976</std>
        </statistics>
        <pixel_spacing>
            <x units="&#8491;">1.88</x>
            <y units="&#8491;">1.88</y>
            <z units="&#8491;">1.88</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.5</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>Reconstruction of yeast gamma-TuSC trapped in a closed state by disulfide crosslinks</annotation_details>
        <details>::::EMDATABANK.org::::EMD-2799::::</details>
    </map>
</emd>