<?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-11548">
    <admin>
        <current_status>
            <date>2024-05-01</date>
            <code>REL</code>
            <processing_site>PDBe</processing_site>
        </current_status>
        <sites>
            <deposition>PDBe</deposition>
            <last_processing>PDBe</last_processing>
        </sites>
        <key_dates>
            <deposition>2020-07-30</deposition>
            <header_release>2020-11-25</header_release>
            <map_release>2020-11-25</map_release>
            <update>2024-05-01</update>
        </key_dates>
        <grant_support>
            <grant_reference>
                <funding_body>National Science Foundation (NSF, China)</funding_body>
                <code>2017YFA0504803, 2018YFA0507700, 2017YFC0840100, 2017YFC00840101,31900039,81971974</code>
                <country>China</country>
            </grant_reference>
            <grant_reference>
                <funding_body>Wellcome Trust</funding_body>
                <code>WT106121MA</code>
                <country>United Kingdom</country>
            </grant_reference>
        </grant_support>
        <title>Cryo-EM structure of MlaFEDB in complex with phospholipid</title>
        <authors_list>
            <author>Dong CJ</author>
            <author>Dong HH</author>
        </authors_list>
        <keywords>phospholipid, phospholipid transport, ABC transporter, MlaFEDB, MlaFE, MlaD, MlaE, MlaF, MlaB, outer membrane, Mla transport pathway, LIPID TRANSPORT</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="true">
                    <author order="1">Tang X</author>
                    <author order="2">Chang S</author>
                    <author order="3">Qiao W</author>
                    <author order="4">Luo Q</author>
                    <author order="5">Chen Y</author>
                    <author order="6">Jia Z</author>
                    <author order="7">Coleman J</author>
                    <author order="8">Zhang K</author>
                    <author order="9">Wang T</author>
                    <author order="10">Zhang Z</author>
                    <author order="11">Zhang C</author>
                    <author order="12">Zhu X</author>
                    <author order="13">Wei X</author>
                    <author order="14">Dong C</author>
                    <author order="15">Zhang X</author>
                    <author order="16">Dong H</author>
                    <title>Structural insights into outer membrane asymmetry maintenance in Gram-negative bacteria by MlaFEDB.</title>
                    <journal_abbreviation>Nat.Struct.Mol.Biol.</journal_abbreviation>
                    <country>US</country>
                    <volume>28</volume>
                    <first_page>81</first_page>
                    <last_page>91</last_page>
                    <year>2021</year>
                    <external_references type="PUBMED">33199922</external_references>
                    <external_references type="DOI">doi:10.1038/s41594-020-00532-y</external_references>
                    <external_references type="ISSN">1545-9985</external_references>
                </journal_citation>
            </primary_citation>
        </citation_list>
        <pdb_list>
            <pdb_reference>
                <pdb_id>6zy3</pdb_id>
                <relationship>
                    <in_frame>FULLOVERLAP</in_frame>
                </relationship>
            </pdb_reference>
        </pdb_list>
    </crossreferences>
    <sample>
        <name>MlaFEDB</name>
        <supramolecule_list>
            <complex_supramolecule supramolecule_id="1">
                <name>MlaFEDB</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>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="2">
                <name>YrbD protein</name>
                <parent>1</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>1</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="550676">Escherichia coli B185</organism>
                </natural_source>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="3">
                <name>ABC transporter maintaining OM lipid asymmetry, cytoplasmic STAS component</name>
                <parent>1</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>2</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="562">Escherichia coli</organism>
                </natural_source>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="4">
                <name>Toluene tolerance protein Ttg2A</name>
                <parent>1</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>3</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="1269007">Escherichia coli 909945-2</organism>
                </natural_source>
            </complex_supramolecule>
            <complex_supramolecule supramolecule_id="5">
                <name>Uncharacterized protein</name>
                <parent>1</parent>
                <macromolecule_list>
                    <macromolecule>
                        <macromolecule_id>4</macromolecule_id>
                    </macromolecule>
                </macromolecule_list>
                <natural_source database="NCBI">
                    <organism ncbi="869688">Escherichia coli 2.3916</organism>
                </natural_source>
            </complex_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>YrbD protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="550676">Escherichia coli B185</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.019593133000000002</theoretical>
                </molecular_weight>
                <number_of_copies>6</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MQTKKNEIWVGIFLLAALLAALFVCLKAANVTSIRTEPTYTLYATFDNIGGLKARSPVSIGGVVVGRVADITLDPKTYLP
RVTLEIEQRYNHIPDTSSLSIRTSGLLGEQYLALNVGFEDPELGTAILKDGDTIQDTKSAMVLEDLIGQFLYGSKGDDNK
NSGDAPAAAPGNNETTEPVGTTK</string>
                    <external_references type="UNIPROTKB">D6IEA5</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="2">
                <name>ABC transporter maintaining OM lipid asymmetry, cytoplasmic STAS component</name>
                <natural_source database="NCBI">
                    <organism ncbi="562">Escherichia coli</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.011795487999999998</theoretical>
                </molecular_weight>
                <number_of_copies>2</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MSESLSWMQTGDTLALSGELDQDVLLPLWEMREEAVKGITCIDLSRVSRVDTGGLALLLHLIDLAKKQGNNVTLQGVNDK
VYTLAKLYNLPADVLPRHHHHHHHH</string>
                    <external_references type="UNIPROTKB">W8T4U6</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="3">
                <name>Toluene tolerance protein Ttg2A</name>
                <natural_source database="NCBI">
                    <organism ncbi="1269007">Escherichia coli 909945-2</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.029128801</theoretical>
                </molecular_weight>
                <number_of_copies>2</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MEQSVANLVDMRDVSFTRGNRCIFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQIAPDHGEILFDGENIPAMSRSRL
YTVRKRMSMLFQSGALFTDMNVFDNVAYPLREHTQLPAPLLHSTVMMKLEAVGLRGAAKLMPSELSGGMARRAALARAIA
LEPDLIMFDEPFVGQDPITMGVLVKLISELNSALGVTCVVVSHDVPEVLSIADHAWILADKKIVAHGSAQALQANPDPRV
RQFLDGIADGPVPFRYPAGDYHADLLPGS</string>
                    <external_references type="UNIPROTKB">V0AC37</external_references>
                </sequence>
            </protein_or_peptide>
            <protein_or_peptide macromolecule_id="4">
                <name>Uncharacterized protein</name>
                <natural_source database="NCBI">
                    <organism ncbi="869688">Escherichia coli 2.3916</organism>
                </natural_source>
                <molecular_weight>
                    <theoretical units="MDa">0.027885161999999998</theoretical>
                </molecular_weight>
                <number_of_copies>2</number_of_copies>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                </recombinant_expression>
                <enantiomer>LEVO</enantiomer>
                <sequence>
                    <string>MLLNALASLGHKGIKTLRTFGRAGLMLFNALVGKPEFRKHAPLLVRQLYNVGVLSMLIIVVSGVFIGMVLGLQGYLVLTT
YSAETSLGMLVALSLLRELGPVVAALLFAGRAGSALTAEIGLMRATEQLSSMEMMAVDPLRRVISPRFWAGVISLPLLTV
IFVAVGIWGGSLVGVSWKGIDSGFFWSAMQNAVDWRMDLVNCLIKSVVFAITVTWISLFNGYDAIPTSAGISRATTRTVV
HSSLAVLGLDFVLTALMFGN</string>
                    <external_references type="UNIPROTKB">I2X585</external_references>
                </sequence>
            </protein_or_peptide>
            <ligand macromolecule_id="5">
                <name>1,2-dioleoyl-sn-glycero-3-phosphoethanolamine</name>
                <molecular_weight>
                    <theoretical units="MDa">0.000744034</theoretical>
                </molecular_weight>
                <number_of_copies>1</number_of_copies>
                <formula>PEE</formula>
            </ligand>
        </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>7.8</ph>
                        <component>
                            <concentration units="mM">20.0</concentration>
                            <formula>Tris-HCl</formula>
                        </component>
                        <component>
                            <concentration units="mM">150.0</concentration>
                            <formula>NaCl</formula>
                        </component>
                        <component>
                            <concentration units="%">0.05</concentration>
                            <formula>LMNG</formula>
                        </component>
                        <details>20 mM Tris-Cl, pH 7.8, 150 mM NaCl and 0.05% LMNG</details>
                    </buffer>
                    <vitrification>
                        <cryogen_name>ETHANE</cryogen_name>
                        <chamber_humidity units="percentage">95</chamber_humidity>
                        <chamber_temperature units="K">298</chamber_temperature>
                    </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>
                    <image_recording_list>
                        <image_recording image_recording_id="1">
                            <film_or_detector_model>GATAN K2 SUMMIT (4k x 4k)</film_or_detector_model>
                            <average_electron_dose_per_image units="e/Å^2">40.0</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>
                <startup_model type_of_model="NONE"/>
                <final_reconstruction>
                    <number_classes_used>2</number_classes_used>
                    <applied_symmetry>
                        <point_group>C1</point_group>
                    </applied_symmetry>
                    <algorithm>FOURIER SPACE</algorithm>
                    <resolution units="Å" res_type="BY AUTHOR">3.3</resolution>
                    <resolution_method>FSC 0.143 CUT-OFF</resolution_method>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                    <number_images_used>97672</number_images_used>
                </final_reconstruction>
                <initial_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </initial_angle_assignment>
                <final_angle_assignment>
                    <type>MAXIMUM LIKELIHOOD</type>
                </final_angle_assignment>
                <final_three_d_classification>
                    <software_list>
                        <software>
                            <name>RELION</name>
                        </software>
                    </software_list>
                </final_three_d_classification>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="67109">
        <file>emd_11548.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>256</col>
            <row>256</row>
            <sec>256</sec>
        </dimensions>
        <origin>
            <col>0</col>
            <row>0</row>
            <sec>0</sec>
        </origin>
        <spacing>
            <x>256</x>
            <y>256</y>
            <z>256</z>
        </spacing>
        <cell>
            <a units="Å">259.584</a>
            <b units="Å">259.584</b>
            <c units="Å">259.584</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>-0.10575057</minimum>
            <maximum>0.172464</maximum>
            <average>0.00023377367</average>
            <std>0.004246845</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">1.014</x>
            <y units="Å">1.014</y>
            <z units="Å">1.014</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.02</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <label>::::EMDATABANK.org::::EMD-11548::::</label>
    </map>
    <interpretation>
        <modelling_list>
            <modelling>
                <refinement_protocol>AB INITIO MODEL</refinement_protocol>
                <refinement_space>RECIPROCAL</refinement_space>
                <overall_bvalue>77.0</overall_bvalue>
            </modelling>
        </modelling_list>
    </interpretation>
</emd>
