<?xml version="1.0" encoding="UTF-8"?>
<emd xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="https://ftp.ebi.ac.uk/pub/databases/em_ebi/emdb_related/emdb-schemas/emdb_schemas/v3/v3_0_9_3/emdb.xsd" version="3.0.9.3" emdb_id="EMD-15413">
    <admin>
        <current_status>
            <date>2024-07-24</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2022-07-18</deposition>
            <header_release>2023-06-21</header_release>
            <map_release>2023-06-21</map_release>
            <update>2024-07-24</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>Spanish Ministry of Science, Innovation, and Universities</funding_body>
                <code>PID2020-119132GB-100</code>
                <country>Spain</country>
            </grant_reference>
        </grant_support>
        <title>Architecture of the ESCPE-1 membrane coat</title>
        <authors_list>
            <author>Lopez-Robles C</author>
            <author>Scaramuzza S</author>
            <author>Astorga-Simon E</author>
            <author>Ishida M</author>
            <author>Williamsom CD</author>
            <author>Banos-Mateos S</author>
            <author>Gil-Carton D</author>
            <author>Romero M</author>
            <author>Vidaurrazaga A</author>
            <author>Fernandez-Recio J</author>
            <author>Rojas AL</author>
            <author>Bonifacino JS</author>
            <author>Castano-Diez D</author>
            <author>Hierro A</author>
        </authors_list>
        <keywords>sorting nexins, PX domain, BAR domain, endosomes, retrograde transport, endocytic recycling, cargo recognition, protein coat, membrane recruitment, membrane deformation, membrane tubules., TRANSPORT PROTEIN</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Lopez-Robles C</author>
                    <author order="2">Scaramuzza S</author>
                    <author order="3">Astorga-Simon EN</author>
                    <author order="4">Ishida M</author>
                    <author order="5">Williamson CD</author>
                    <author order="6">Banos-Mateos S</author>
                    <author ORCID="0000-0003-4241-1302" order="7">Gil-Carton D</author>
                    <author ORCID="0000-0001-6779-8553" order="8">Romero-Durana M</author>
                    <author order="9">Vidaurrazaga A</author>
                    <author ORCID="0000-0002-3986-7686" order="10">Fernandez-Recio J</author>
                    <author ORCID="0000-0002-7358-3505" order="11">Rojas AL</author>
                    <author ORCID="0000-0002-5673-6370" order="12">Bonifacino JS</author>
                    <author ORCID="0000-0002-0197-163X" order="13">Castano-Diez D</author>
                    <author ORCID="0000-0002-7721-1581" order="14">Hierro A</author>
                    <title>Architecture of the ESCPE-1 membrane coat.</title>
                    <journal_abbreviation>Nat.Struct.Mol.Biol.</journal_abbreviation>
                    <country>US</country>
                    <volume>30</volume>
                    <first_page>958</first_page>
                    <last_page>969</last_page>
                    <year>2023</year>
                    <external_references type="PUBMED">37322239</external_references>
                    <external_references type="DOI">doi:10.1038/s41594-023-01014-7</external_references>
                    <external_references type="ISSN">1545-9985</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>8afz</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>Endosomal Sorting Complex for Promoting Exit 1 (ESCPE-1)</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>Endosomal Sorting Complex for Promoting Exit 1 (ESCPE-1)</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_list>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.110</theoretical>
                </molecular_weight>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>Sorting nexin-1</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.05914434</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MASGGGGCSASERLPPPFPGLEPESEGAAGGSEPEAGDSDTEGEDIFTGAAVVSKHQSPKITTSLLPINNGSKENGIHEE
QDQEPQDLFADATVELSLDSTQNNQKKVLAKTLISLPPQEATNSSKPQPTYEELEEEEQEDQFDLTVGITDPEKIGDGMN
AYVAYKVTTQTSLPLFRSKQFAVKRRFSDFLGLYEKLSEKHSQNGFIVPPPPEKSLIGMTKVKVGKEDSSSAEFLEKRRA
ALERYLQRIVNHPTMLQDPDVREFLEKEELPRAVGTQTLSGAGLLKMFNKATDAVSKMTIKMNESDIWFEEKLQEVECEE
QRLRKLHAVVETLVNHRKELALNTAQFAKSLAMLGSSEDNTALSRALSQLAEVEEKIEQLHQEQANNDFFLLAELLSDYI
RLLAIVRAAFDQRMKTWQRWQDAQATLQKKREAEARLLWANKPDKLQQAKDEILEWESRVTQYERDFERISTVVRKEVIR
FEKEKSKDFKNHVIKYLETLLYSQQQLAKYWEAFLPEAKAIS</string>
                    <external_references type="UNIPROTKB">Q13596</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>Sorting nexin-5</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.046891504</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MAAVPELLQQQEEDRSKLRSVSVDLNVDPSLQIDIPDALSERDKVKFTVHTKTTLPTFQSPEFSVTRQHEDFVWLHDTLI
ETTDYAGLIIPPAPTKPDFDGPREKMQKLGEGEGSMTKEEFAKMKQELEAEYLAVFKKTVSSHEVFLQRLSSHPVLSKDR
NFHVFLEYDQDLSVRRKNTKEMFGGFFKSVVKSADEVLFTGVKEVDDFFEQEKNFLINYYNRIKDSCVKADKMTRSHKNV
ADDYIHTAACLHSLALEEPTVIKKYLLKVAELFEKLRKVEGRVSSDEDLKLTELLRYYMLNIEAAKDLLYRRTKALIDYE
NSNKALDKARLKSKDVKLAEAHQQECCQKFEQLSESAKEELINFKRKRVAAFRKNLIEMSELEIKHARNNVSLLQSCIDL
FKNN</string>
                    <external_references type="UNIPROTKB">Q9Y5X3</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>Cation-independent mannose-6-phosphate receptor</name>
                <natural_source database="NCBI">
                    <organism ncbi="9606">Homo sapiens</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.003766033</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>SNVSYKYSKVNKEEETDENETEWLMEEIQLP</string>
                    <external_references type="UNIPROTKB">P11717</external_references>
                </sequence>
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>subtomogramAveraging</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <subtomogram_averaging_preparation preparation_id="1">
                    <concentration units="mg/mL">3.0</concentration>
                    <buffer>
                        <ph>7.5</ph>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">90</chamber_humidity>
                        <chamber_temperature units="K">282</chamber_temperature>
                        <instrument>FEI VITROBOT MARK II</instrument>
                        <details>Incubation time 30s
Blotting time 2s. </details>
                    </vitrification>
                </subtomogram_averaging_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <subtomogram_averaging_microscopy microscopy_id="1">
                    <microscope>TFS 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>
                    <nominal_cs units="mm">2.7</nominal_cs>
                    <nominal_defocus_min units="µm">2.0</nominal_defocus_min>
                    <nominal_defocus_max units="µm">5.0</nominal_defocus_max>
                    <specimen_holder_model>FEI TITAN KRIOS AUTOGRID HOLDER</specimen_holder_model>
                    <cooling_holder_cryogen>NITROGEN</cooling_holder_cryogen>
                    <alignment_procedure>
                        <coma_free/>
                    </alignment_procedure>
                    <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>COUNTING</detector_mode>
                            <digitization_details/>
                            <number_grids_imaged>1</number_grids_imaged>
                            <average_electron_dose_per_image units="e/Å^2">2.8</average_electron_dose_per_image>
                        </image_recording>
                    </image_recording_list>
                </subtomogram_averaging_microscopy>
            </microscopy_list>
            <subtomogram_averaging_processing image_processing_id="1">
                <image_recording_id>1</image_recording_id>
                <final_reconstruction>
                    <applied_symmetry>
                        <point_group>C2</point_group>
                    </applied_symmetry>
                    <algorithm>BACK PROJECTION</algorithm>
                    <resolution units="Å" res_type="BY AUTHOR">10.0</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <number_subtomograms_used>15116</number_subtomograms_used>
                </final_reconstruction>
                <extraction>
                    <number_tomograms>57</number_tomograms>
                    <number_images_used>77436</number_images_used>
                </extraction>
                <final_angle_assignment>
                    <type>NOT APPLICABLE</type>
                </final_angle_assignment>
            </subtomogram_averaging_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="3539">
        <file>emd_15413.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>96</col>
            <row>96</row>
            <sec>96</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>96</x>
            <y>96</y>
            <z>96</z>
        </spacing>
        <cell>
            <a units="Å">262.08002</a>
            <b units="Å">262.08002</b>
            <c units="Å">262.08002</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>-8.233516</minimum>
            <maximum>7.2678957</maximum>
            <average>-0.030197147</average>
            <std>0.63029784</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">2.7300003</x>
            <y units="Å">2.7300003</y>
            <z units="Å">2.7300003</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.8</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-15413::::</label>
    </map>
    <interpretation>
        <half_map_list>
            <half_map format="CCP4" size_kbytes="3539">
                <file>emd_15413_half_map_2.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                <dimensions>
                    <col>96</col>
                    <row>96</row>
                    <sec>96</sec>
                </dimensions>
                <origin>
                    <col>0</col>
                    <row>0</row>
                    <sec>0</sec>
                </origin>
                <spacing>
                    <x>96</x>
                    <y>96</y>
                    <z>96</z>
                </spacing>
                <cell>
                    <a units="Å">262.08002</a>
                    <b units="Å">262.08002</b>
                    <c units="Å">262.08002</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>-16.650165999999999</minimum>
                    <maximum>11.355649</maximum>
                    <average>-0.031291083</average>
                    <std>0.66200215</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">2.7300003</x>
                    <y units="Å">2.7300003</y>
                    <z units="Å">2.7300003</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-15413::::</label>
            </half_map>
            <half_map format="CCP4" size_kbytes="3539">
                <file>emd_15413_half_map_1.map.gz</file>
                <symmetry>
                    <space_group>1</space_group>
                </symmetry>
                <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
                <dimensions>
                    <col>96</col>
                    <row>96</row>
                    <sec>96</sec>
                </dimensions>
                <origin>
                    <col>0</col>
                    <row>0</row>
                    <sec>0</sec>
                </origin>
                <spacing>
                    <x>96</x>
                    <y>96</y>
                    <z>96</z>
                </spacing>
                <cell>
                    <a units="Å">262.08002</a>
                    <b units="Å">262.08002</b>
                    <c units="Å">262.08002</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>-12.212872000000001</minimum>
                    <maximum>9.605853</maximum>
                    <average>-0.029103214</average>
                    <std>0.6593547</std>
                </statistics>
                <pixel_spacing>
                    <x units="Å">2.7300003</x>
                    <y units="Å">2.7300003</y>
                    <z units="Å">2.7300003</z>
                </pixel_spacing>
                <contour_list>
                    <contour primary="true">
                        <source>AUTHOR</source>
                    </contour>
                </contour_list>
                <label>::::EMDATABANK.org::::EMD-15413::::</label>
            </half_map>
        </half_map_list>
    </interpretation>
</emd>
