<?xml version="1.0" encoding="UTF-8"?>
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    <admin>
        <current_status>
            <date>2024-10-09</date>
            <code>REL</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2018-10-08</deposition>
            <header_release>2018-10-24</header_release>
            <map_release>2018-12-12</map_release>
            <update>2024-10-09</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>National Health and Medical Research Council (NHMRC, Australia)</funding_body>
                <code>GNT637406</code>
                <country>Australia</country>
            </grant_reference>
        </grant_support>
        <title>Cryo-electron microscopy structure of Plasmodium falciparum Rh5/CyRPA/Ripr invasion complex</title>
        <authors_list>
            <author>Wilson W</author>
            <author>Zhiheng Y</author>
        </authors_list>
        <keywords>Invasion Ligand Protein complex, CELL INVASION</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Wong W</author>
                    <author order="2">Huang R</author>
                    <author order="3">Menant S</author>
                    <author order="4">Hong C</author>
                    <author order="5">Sandow JJ</author>
                    <author order="6">Birkinshaw RW</author>
                    <author order="7">Healer J</author>
                    <author order="8">Hodder AN</author>
                    <author order="9">Kanjee U</author>
                    <author order="10">Tonkin CJ</author>
                    <author order="11">Heckmann D</author>
                    <author order="12">Soroka V</author>
                    <author order="13">Sogaard TMM</author>
                    <author order="14">Jorgensen T</author>
                    <author order="15">Duraisingh MT</author>
                    <author order="16">Czabotar PE</author>
                    <author order="17">de Jongh WA</author>
                    <author order="18">Tham WH</author>
                    <author order="19">Webb AI</author>
                    <author order="20">Yu Z</author>
                    <author order="21">Cowman AF</author>
                    <title>Structure of Plasmodium falciparum Rh5-CyRPA-Ripr invasion complex.</title>
                    <journal_abbreviation>Nature</journal_abbreviation>
                    <country>UK</country>
                    <volume>565</volume>
                    <first_page>118</first_page>
                    <last_page>121</last_page>
                    <year>2019</year>
                    <external_references type="PUBMED">30542156</external_references>
                    <external_references type="DOI">doi:10.1038/s41586-018-0779-6</external_references>
                    <external_references type="ISSN">1476-4687</external_references>
                    <external_references type="CSD">0006</external_references>
                    <external_references type="ASTM">NATUAS</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>6mpv</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>PfRh5/CyRPA/PfRipr complex</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>PfRh5/CyRPA/PfRipr complex</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_list>
                <natural_source database="NCBI">
                    <organism ncbi="36329">Plasmodium falciparum 3D7</organism>
                </natural_source>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Cysteine-rich protective antigen</name>
                <natural_source database="NCBI">
                    <organism ncbi="36329">Plasmodium falciparum (isolate 3D7)</organism>
                    <strain>isolate 3D7</strain>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.039270195</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="266783">Insect cell expression vector pTIE1</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>RHVFIRTELSFIKNNVPCIRDMFFIYKRELYNICLDDLKGEEDETHIYVQKKVKDSWITLNDLFKETDLTGRPHIFAYVD
VEEIIILLCEDEEFSNRKKDMTCHRFYSNDGKEYNNAEITISDYILKDKLLSSYVSLPLKIENREYFLICGVSPYKFKDD
NKKDDILCMASHDKGETWGTKIVIKYDNYKLGVQYFFLRPYISKNDLSFHFYVGDNINNVKNVNFIECTHEKDLEFVCSN
RDFLKDNKVLQDVSTLNDEYIVSYGNDNNFAECYIFFNNENSILIKPEKYGNTTAGCYGGTFVKIDENRALFIYSSSQGI
YNIHTIYYANYE</string>
                    <external_references type="UNIPROTKB">Q8IFM8</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>Reticulocyte binding protein 5</name>
                <natural_source database="NCBI">
                    <organism ncbi="5833">Plasmodium falciparum</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.039803371</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="266783">Insect cell expression vector pTIE1</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>IIPHYTFLDYYKHLSYNSIYHKSSTYGKCIAVDAFIKKINETYDKVKSKCNDIKNDLIATIKKLEHPYDINNKNDDSYRY
DISEEIDDKSEETDDETEEVEDSIQDTDSNHTPSNKKKNDLMNRTFKKMMDEYNTKKKKLIKCIKNHENDFNKICMDMKN
YGTNLFEQLSCYNNNFCNTNGIRYHYDEYIHKLILSVKSKNLNKDLSDMTNILQQSELLLTNLNKKMGSYIYIDTIKFIH
KEMKHIFNRIEYHTKIINDKTKIIQDKIKLNIWRTFQKDELLKRILDMSNEYSLFITSDHLRQMLYNTFYSKEKHLNNIF
HHLIYVLQMK</string>
                    <external_references type="UNIPROTKB">B2L3N7</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>PfRipr</name>
                <natural_source database="NCBI">
                    <organism ncbi="36329">Plasmodium falciparum 3D7</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.0013796919999999999</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="7271">Drosophila nebulosa</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)</string>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="4">
                <name>PfRipr</name>
                <natural_source database="NCBI">
                    <organism ncbi="36329">Plasmodium falciparum 3D7</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.00044353899999999996</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="7271">Drosophila nebulosa</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>(UNK)(UNK)(UNK)(UNK)(UNK)</string>
                </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>8.5</ph>
                        <details>20 mM Tris, pH 8.5, 150 mM NaCl</details>
                    </buffer>
                    <grid>
                        <model>Quantifoil R1.2/1.3</model>
                        <material>COPPER</material>
                        <mesh>400</mesh>
                    </grid>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">100</chamber_humidity>
                        <chamber_temperature units="K">277</chamber_temperature>
                        <instrument>FEI VITROBOT MARK IV</instrument>
                    </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">70.0</c2_aperture_diameter>
                    <nominal_cs units="mm">0.01</nominal_cs>
                    <nominal_magnification>105000.0</nominal_magnification>
                    <calibrated_magnification>48077.0</calibrated_magnification>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <zemlin_tableau/>
                    </alignment_procedure>
                    <specialist_optics>
                        <sph_aberration_corrector>Microscope was equipped with a Cs corrector with two hexapole elements</sph_aberration_corrector>
                        <energy_filter>
                            <name>GIF Quantum LS</name>
                            <slit_width units="eV">20</slit_width>
                        </energy_filter>
                    </specialist_optics>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K2 SUMMIT (4k x 4k)</film_or_detector_model>
                            <detector_mode>SUPER-RESOLUTION</detector_mode>
                            <digitization_details>
                                <dimensions>
                                    <width units="pixel">3838</width>
                                    <height units="pixel">3710</height>
                                </dimensions>
                            </digitization_details>
                            <number_grids_imaged>4</number_grids_imaged>
                            <number_real_images>12974</number_real_images>
                            <average_exposure_time units="s">10.0</average_exposure_time>
                            <average_electron_dose_per_image units="e/Å^2">92.5</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>
                <startup_model type_of_model="OTHER">
                    <details>Ab initial</details>
                </startup_model>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <resolution units="Å" res_type="BY AUTHOR">7.17</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <number_images_used>218837</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                    <software_list>
                        <software>
                            <name>cryoSPARC</name>
                        </software>
                    </software_list>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </final_angle_assignment>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="108001">
        <file>emd_9192.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>300</col>
            <row>300</row>
            <sec>300</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>300</x>
            <y>300</y>
            <z>300</z>
        </spacing>
        <cell>
            <a units="Å">312.0</a>
            <b units="Å">312.0</b>
            <c units="Å">312.0</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>-0.05678736</minimum>
            <maximum>0.14083731</maximum>
            <average>0.000076569624</average>
            <std>0.0026534924</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">1.04</x>
            <y units="Å">1.04</y>
            <z units="Å">1.04</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.034</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::D_1000237359::::</label>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <initial_model>
                    <access_code>4WAT</access_code>
                    <chain>
                        <source_name>PDB</source_name>
                        <initial_model_type>experimental model</initial_model_type>
                    </chain>
                </initial_model>
                <initial_model>
                    <access_code>5TIK</access_code>
                    <chain>
                        <source_name>PDB</source_name>
                        <initial_model_type>experimental model</initial_model_type>
                    </chain>
                </initial_model>
                <refinement_space>REAL</refinement_space>
            </modelling>
        </modelling_list>
    </interpretation>
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