<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://github.com/emdb-empiar/emdb-schemas/blob/master/v3/v3_0_1_7/emdb.xsd" emdb_id="EMD-20858" version="3.0.1.7">
    <admin>
        <current_status>
            <date>2020-02-05</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2019-10-23</deposition>
            <header_release>2020-02-05</header_release>
            <map_release>2020-02-05</map_release>
            <update>2020-02-05</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Natural Sciences and Engineering Research Council (NSERC, Canada)</funding_body>
                <code>RGPIN-2016-04954</code>
                <country>Canada</country>
            </grant_reference>
            <grant_reference>
                <funding_body>Natural Sciences and Engineering Research Council (NSERC, Canada)</funding_body>
                <code>RGPIN-2018-04813</code>
                <country>Canada</country>
            </grant_reference>
            <grant_reference>
                <funding_body>Canadian Institutes of Health Research (CIHR)</funding_body>
                <code>PJT-156354</code>
                <country>Canada</country>
            </grant_reference>
        </grant_support>
        <title>The inner junction complex of Chlamydomonas reinhardtii doublet microtubule</title>
        <authors_list>
            <author>Khalifa AAZ</author>
            <author>Ichikawa M</author>
            <author>Bui KH</author>
        </authors_list>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Khalifa AAZ</author>
                    <author order="2">Ichikawa M</author>
                    <author order="3">Dai D</author>
                    <author order="4">Kubo S</author>
                    <author order="5">Black C</author>
                    <author order="6">Peri K</author>
                    <author order="7">McAlear TS</author>
                    <author order="8">Veyron S</author>
                    <author order="9">Yang SK</author>
                    <author order="10">Vargas J</author>
                    <author order="11">Bechstedt S</author>
                    <author order="12">Trempe JF</author>
                    <author order="13">Bui KH</author>
                    <title>The inner junction complex of the cilia is an interaction hub that involves tubulin post-translational modifications.</title>
                    <journal_abbreviation>Elife</journal_abbreviation>
                    <country>US</country>
                    <volume>9</volume>
                    <year>2020</year>
                    <external_references type="PUBMED">31951202</external_references>
                    <external_references type="DOI">doi:10.7554/eLife.52760</external_references>
                    <external_references type="ISSN">2050-084X</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <emdb_list>
            <emdb_reference>
                <emdb_id>EMD-20856</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-20855</emdb_id>
                <relationship>
                    <other>other EM volume</other>
                </relationship>
            </emdb_reference>
            <emdb_reference>
                <emdb_id>EMD-20858</emdb_id>
                <relationship>
                    <other>associated EM volume</other>
                </relationship>
            </emdb_reference>
        </emdb_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>6ve7</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>Inner junction complex of the cilia</name>
        <supramolecule_list>
            <organelle_or_cellular_component_supramolecule supramolecule_id="1">
                <name>Inner junction complex of the cilia</name>
                <parent>0</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>2</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>3</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>4</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>5</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>6</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>7</macromolecule_id>
                    </macromolecule>
                    <macromolecule>
                        <macromolecule_id>8</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                    <strain>CC124</strain>
                    <organelle>cilia</organelle>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">1</experimental>
                </molecular_weight>
            </organelle_or_cellular_component_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Tubulin beta</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.049665809</theoretical>
                </molecular_weight>
                <number_of_copies>18</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MREIVHIQGGQCGNQIGAKFWEVVSDEHGIDPTGTYHGDSDLQLERINVYFNEATGGRYVPRAILMDLEPGTMDSVRSGP
YGQIFRPDNFVFGQTGAGNNWAKGHYTEGAELIDSVLDVVRKEAESCDCLQGFQVCHSLGGGTGSGMGTLLISKIREEYP
DRMMLTFSVVPSPKVSDTVVEPYNATLSVHQLVENADECMVLDNEALYDICFRTLKLTTPTFGDLNHLISAVMSGITCCL
RFPGQLNADLRKLAVNLIPFPRLHFFMVGFTPLTSRGSQQYRALTVPELTQQMWDAKNMMCAADPRHGRYLTASALFRGR
MSTKEVDEQMLNVQNKNSSYFVEWIPNNVKSSVCDIPPKGLKMSATFIGNSTAIQEMFKRVSEQFTAMFRRKAFLHWYTG
EGMDEMEFTEAESNMNDLVSEYQQYQDASAEEEGEFEGEEEEA</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>Flagellar associated protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.027019803</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MQEESVYALIPQPQEVPQRPAMHTSKFGGKTHPAQFDFGQNKVQPHATMGRPDGANGPAFLHAHEKEPKLPSPGPPSNPK
QKIRPPVPAKEEKPTMGLTSNKNFITANAVDVILAKPGKVPQPEFQWTQKPDYGKVPMYLKRNKDRVAKEKEHFTQYLRM
REAPEANAHVSQLSPEDRQQLVRHLKAKWGSVNTAYQGLSLSVDSAVKKGRKEAMERELAEIERDIRTLERGEVVLVVDD</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>Tubulin alpha</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.049638008</theoretical>
                </molecular_weight>
                <number_of_copies>20</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MREVISIHIGQAGIQVGNACWELYCLEHGIQPDGQMPSDKTIGGGDDAFNTFFSETGAGKHVPRCIFLDLEPTVVDEVRT
GTYRQLFHPEQLISGKEDAANNFARGHYTIGKEIVDLALDRIRKLADNCTGLQGFLVFNAVGGGTGSGLGSLLLERLSVD
YGKKSKLGFTVYPSPQVSTAVVEPYNSVLSTHSLLEHTDVAVMLDNEAIYDICRRSLDIERPTYTNLNRLIAQVISSLTA
SLRFDGALNVDITEFQTNLVPYPRIHFMLSSYAPIISAEKAYHEQLSVAEITNAAFEPASMMVKCDPRHGKYMACCLMYR
GDVVPKDVNASVATIKTKRTIQFVDWCPTGFKCGINYQPPTVVPGGDLAKVQRAVCMISNSTAIGEIFSRLDHKFDLMYA
KRAFVHWYVGEGMEEGEFSEAREDLAALEKDFEEVGAESAEGAGEGEGEEY</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="4">
                <name>FAP276</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.010073385</theoretical>
                </molecular_weight>
                <number_of_copies>2</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MDLKQQVKNYTMTIRNTRPPTMIKEQDKSEFSHFRALQVLANGDEVPYEATLRNVIHDGARQPKLPPRQTQKHPGYIRNE
SGGFFTS</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="5">
                <name>Protein Flattop homolog</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.015435397</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MSRSYPGEQVEHAFNSKRLKNWEVPAVDKSQAISTSTGTRFGTLQPRSGRTQFIVDDNGHLKSGVPKLEKSAFNFTQTTP
VFMDSAPRWPKENPTWPKNMKATMGYKGIQSNYLPTNTVTLKAVEVPGTTERNFNFM</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="6">
                <name>Cilia- and flagella-associated protein 20</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.022193566</theoretical>
                </molecular_weight>
                <number_of_copies>3</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MFKNAFQSGFLSVLYSIGSKPLEIWDKQVSNGHIKRITDADIQSSVLEIMGQNVSTTYITCPADPNKTLGIKLPFLVLII
KNLNKYFSFEVQVLDDKNVRRRFRASNYQSTTRVKPFICTMPMRLDSGWNQIQFNLSDFTRRAYGTNYIETLRVQVHANC
RIRRIYFSDRLYSEEELPAEFKLFLPIQKS</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="7">
                <name>PACRG</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.034215148</theoretical>
                </molecular_weight>
                <number_of_copies>3</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MNGDVAGSLFTSTYRNVKLAGKAPPAANLSGTGSCFDTTSLSPARAGAHKALDVQKDELPVWSKSTLSYKYPAGRPNPTG
FLKKGDGEMIKTKTGGFEERKPSPPQAGAYKRRENPPNTAFRRFYERGDLPIAVDHRGSKNMIAWKVDIEKLDYHHYLPI
FFDGIRETQEPYRFLAVKGVEDMLRVGGSKILPVIPQLIIPIKTALNTRDHSVMCITLQLLQKLVLSADLVGEALVPYYR
QILPIFNLYKNKNKNLGDGIDYGQRNYDCLGELIADTLALFEQKGGDDAFINIKYMVPTYESSVNYA</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="8">
                <name>FAP52</name>
                <natural_source database="NCBI">
                    <organism ncbi="3055">Chlamydomonas reinhardtii</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.068546508</theoretical>
                </molecular_weight>
                <number_of_copies>2</number_of_copies>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MAEPLVLNSVIGFGGAIENGLIAHPDGRTIIYPLGSTIVLRDRADPRSQEFLQGHSDKVSCLALSRSGRYLASGQITYMG
FTADIIIWDLESKQLIHRMALHKVKVQALDFSCDERFLASLGGQDDNALVLWDVASGNAICGSPCNTNFTNCVKFFNNSP
DKLITAGNFNMNVWTYDAGNNKLRPTDATLGTLKRVFKSVVVDANDEYAYCGTTTGDVLQIALERVLFKNTGPAKGNVQM
GVTATCEVPTGDILVGGGDGSLQVLRTVPEPSSTNPKLLRKMPALAGTKVEGAITSIALADMNARGFTFFVGTAMCNIYK
VTYEPATSRLKEELVQTAHNDKINGMAFPNEYSEVFATCGTGFIRLWHLTTCRELLRIAVPNLECFCIAFTTDGSAILSG
WSDGKIRAFGPQSGKIIFTINDAHQKAVTAIASTADSSRILSGGEEGMVRVWRIGRTSQTLEASMKDHKGPVNCIRIKGS
GDECVSASSDGSCILWDLHTFKRRTSLFANTFFKSVVYHPDESQLVTAGTDRKVTYWDAYDGNAIRIIDGSDLDEVNALA
VDRDGEALVSGGGDKLVKLWGYDEGHCYFVGVAHSGAITAVGVTPDKQRIVSVGTEGGIFIWDYQRPQTLADI</string>
                </sequence>
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>singleParticle</method>
            <aggregation_state>filament</aggregation_state>
            <specimen_preparation_list>
                <single_particle_preparation preparation_id="1">
                    <concentration units="mg/mL">4</concentration>
                    <buffer>
                        <ph>7.4</ph>
                    </buffer>
                    <grid>
                        <support_film film_type_id="1">
                            <film_material>CARBON</film_material>
                            <film_topology>HOLEY</film_topology>
                        </support_film>
                        <details>unspecified</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">298</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                        <details></details>
                    </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">300</acceleration_voltage>
                    <c2_aperture_diameter units="µm">50.0</c2_aperture_diameter>
                    <nominal_cs units="mm">2.7</nominal_cs>
                    <nominal_defocus_min units="µm">1.0</nominal_defocus_min>
                    <nominal_defocus_max units="µm">3.8</nominal_defocus_max>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>FEI FALCON II (4k x 4k)</film_or_detector_model>
                            <detector_mode>INTEGRATING</detector_mode>
                            <digitization_details>
                                <frames_per_image>1-7</frames_per_image>
                            </digitization_details>
                            <number_real_images>9528</number_real_images>
                            <average_electron_dose_per_image units="e/Å^2">45.0</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <particle_selection>
                    <number_selected>270713</number_selected>
                </particle_selection>
                <ctf_correction>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>3.0</version>
                        </software>
                    </software_list>
                </ctf_correction>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <algorithm>BACK PROJECTION</algorithm>
                    <resolution units="Å" res_type="BY AUTHOR">3.6</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>3.0</version>
                        </software>
                    </software_list>
                    <number_images_used>270713</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing/>
                    <software_list>
                        <software>
                            <name>SPIDER</name>
                            <version>19.02</version>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>PROJECTION MATCHING</type>
                    <projection_matching_processing/>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>3.0</version>
                        </software>
                    </software_list>
                </final_angle_assignment>
                <final_three_d_classification>
                    <number_classes>1</number_classes>
                    <software_list>
                        <software>
                            <name>RELION</name>
                            <version>3.0</version>
                        </software>
                    </software_list>
                </final_three_d_classification>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="114146">
        <file>emd_20858.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>450</col>
            <row>234</row>
            <sec>271</sec>
        </dimensions>
        <origin>
            <col>35</col>
            <row>219</row>
            <sec>299</sec>
        </origin>
        <spacing>
            <x>271</x>
            <y>234</y>
            <z>450</z>
        </spacing>
        <cell>
            <a units="Å">237.125</a>
            <b units="Å">204.75</b>
            <c units="Å">393.75</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">90.0</gamma>
        </cell>
        <axis_order>
            <fast>Z</fast>
            <medium>Y</medium>
            <slow>X</slow>
        </axis_order>
        <statistics>
            <minimum>-0.078223065</minimum>
            <maximum>0.18503688</maximum>
            <average>0.0024938365</average>
            <std>0.020992871</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">0.875</x>
            <y units="Å">0.875</y>
            <z units="Å">0.875</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.04</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-20858::::</label>
        <annotation_details>16-nm repeating unit of Chlamydomonas inner junction</annotation_details>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <refinement_protocol>AB INITIO MODEL</refinement_protocol>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
    </interpretation>
</emd>
