<emd emdb_id="EMD-5719" 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>PDBj</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>PDBj</last_processing>
        </sites>
        <key_dates>
            <deposition>2013-07-13</deposition>
            <header_release>2013-08-28</header_release>
            <map_release>2013-10-23</map_release>
            <update>2013-10-23</update>
        </key_dates>
        <title>Electron microscopy of the negatively-stained Cmr complex from Thermus thermophilus HB8.</title>
        <authors_list>
            <author>Agari Y</author>
            <author>Maki-Yonekura S</author>
            <author>Staals RH</author>
            <author>van Duijin E</author>
            <author>Heck AJ</author>
            <author>Yonekura K</author>
            <author>van der Oost J</author>
            <author>Shinkai A</author>
        </authors_list>
        <keywords>adaptive immune system, cmr complex, CRISPR-Cas, Thermus thermophilus</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Staals RH</author>
                    <author order="2">Agari Y</author>
                    <author order="3">Maki-Yonekura S</author>
                    <author order="4">Zhu Y</author>
                    <author order="5">Taylor DW</author>
                    <author order="6">van Duijn E</author>
                    <author order="7">Barendregt A</author>
                    <author order="8">Vlot M</author>
                    <author order="9">Koehorst JJ</author>
                    <author order="10">Sakamoto K</author>
                    <author order="11">Masuda A</author>
                    <author order="12">Dohmae N</author>
                    <author order="13">Schaap PJ</author>
                    <author order="14">Doudna JA</author>
                    <author order="15">Heck AJ</author>
                    <author order="16">Yonekura K</author>
                    <author order="17">van der Oost J</author>
                    <author order="18">Shinkai A</author>
                    <title>Structure and Activity of the RNA-Targeting Type III-B CRISPR-Cas Complex of Thermus thermophilus.</title>
                    <journal>MOLECULAR CELL</journal>
                    <volume>52</volume>
                    <first_page>135</first_page>
                    <last_page>145</last_page>
                    <year>2013</year>
                    <external_references type="PUBMED">24119403</external_references>
                    <external_references type="DOI">doi:10.1016/j.molcel.2013.09.013</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Cmr complex from Thermus thermophilus</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Cmr complex from Thermus thermophilus</name>
                <details>sample was monodisperse</details>
                <oligomeric_state>hetero multimer</oligomeric_state>
                <number_unique_components>7</number_unique_components>
                <molecular_weight>
                    <experimental units="MDa">0.4</experimental>
                    <theoretical units="MDa">0.36</theoretical>
                    <method>mass spectorometry</method>
                </molecular_weight>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Cmr2</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                    <cellular_location>cytoplasm</cellular_location>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.065</experimental>
                    <theoretical units="MDa">0.065</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <sequence>
                    <external_references type="UNIPROTKB">Q53W09</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>Cmr3</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.04</experimental>
                    <theoretical units="MDa">0.04</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <sequence>
                    <external_references type="UNIPROTKB">Q53W08</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>Cmr1</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.04</experimental>
                    <theoretical units="MDa">0.04</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <sequence>
                    <external_references type="UNIPROTKB">Q53W07</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="4">
                <name>Cmr4</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.03</experimental>
                    <theoretical units="MDa">0.03</theoretical>
                </molecular_weight>
                <number_of_copies>4</number_of_copies>
                <oligomeric_state>tetramer</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <sequence>
                    <external_references type="UNIPROTKB">Q53W06</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="5">
                <name>Cmr5</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.01</experimental>
                    <theoretical units="MDa">0.01</theoretical>
                </molecular_weight>
                <number_of_copies>3</number_of_copies>
                <oligomeric_state>trimer</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <sequence>
                    <external_references type="UNIPROTKB">Q53W05</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="6">
                <name>Cmr6</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.04</experimental>
                    <theoretical units="MDa">0.04</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <oligomeric_state>monomer</oligomeric_state>
                <recombinant_exp_flag>false</recombinant_exp_flag>
                <recombinant_expression database="NCBI" />
                <sequence>
                    <external_references type="UNIPROTKB">Q53W04</external_references>
                </sequence>
            </protein_or_peptide>
            <rna macromolecule_id="7">
                <name>crRNA</name>
                <natural_source database="NCBI">
                    <organism ncbi="274">Thermus thermophilus</organism>
                    <strain>HB8</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.02</theoretical>
                </molecular_weight>
                <classification>OTHER</classification>
                <structure>SINGLE STRANDED</structure>
                <synthetic_flag>false</synthetic_flag>
            </rna>
        </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">
                    <concentration units="mg/mL">0.1</concentration>
                    <buffer>
                        <ph>8.0</ph>
                        <details>20mM Tris-HCl, 150mM NaCl</details>
                    </buffer>
                    <staining>
                        <type>NEGATIVE</type>
                        <details>Grids with adsorbed protein floated on 2% w/v uranyl acetate for 30 seconds.</details>
                    </staining>
                    <grid>
                        <details>200 mesh gold grid with thin carbon support</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>JEOL 2100</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>LAB6</electron_source>
                    <acceleration_voltage units="kV">200</acceleration_voltage>
                    <specimen_holder_model>JEOL</specimen_holder_model>
                    <date>2011-03-11</date>
                    <image_recording_list>
                        <image_recording>
                            <number_real_images>105</number_real_images>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <details>The particles were selected interactively at the computer terminal.</details>
                <ctf_correction>
                    <details>whole micrograph</details>
                </ctf_correction>
                <final_reconstruction>
                    <algorithm>OTHER</algorithm>
                    <resolution res_type="BY AUTHOR" units="&#8491;">26.0</resolution>
                    <resolution_method>FSC 0.5 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>EMAN</name>
                        </software>
                    </software_list>
                    <number_images_used>8976</number_images_used>
                </final_reconstruction>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
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        <file>emd_5719.map.gz</file>
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            <space_group>1</space_group>
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            <col>41</col>
            <row>41</row>
            <sec>48</sec>
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            <b units="&#8491;">188.59999</b>
            <c units="&#8491;">220.79999</c>
            <alpha units="deg">90.0</alpha>
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            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
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        <statistics>
            <minimum>-1.27373731</minimum>
            <maximum>2.00673509</maximum>
            <average>0.01052072</average>
            <std>0.40630186</std>
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        <contour_list>
            <contour primary="true">
                <level>0.62</level>
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        <annotation_details>3D structure by EM single particle analysis of negatively-stained images</annotation_details>
        <details>::::EMDATABANK.org::::EMD-5719::::</details>
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