<?xml version="1.0" encoding="UTF-8"?>
<emdEntry version="1.9.6" accessCode="3885">
    <admin>
        <lastUpdate>2017-12-06</lastUpdate>
    </admin>
    <deposition>
        <status>HPUB</status>
        <depositionDate>2017-09-27</depositionDate>
        <depositionSite>PDBe</depositionSite>
        <processingSite>PDBe</processingSite>
        <headerReleaseDate>2017-10-04</headerReleaseDate>
        <title>YaxAB pore complex</title>
        <authors>Braeuning B, Bertosin E, Dietz H, Groll M</authors>
        <fittedPDBEntryIdList>
            <fittedPDBEntryId>6el1</fittedPDBEntryId>
        </fittedPDBEntryIdList>
        <primaryReference published="false">
            <journalArticle>
                <authors>Braeuning B, Bertosin E, Praetorius F, Ihling C, Schatt A, Adler A, Richter K, Sinz A, Dietz H, Groll M</authors>
                <articleTitle>Structure and mechanism of the two-component alpha-helical pore-forming toxin YaxAB.</articleTitle>
                <journal>to be published</journal>
                <externalReference type="csd">0353</externalReference>
            </journalArticle>
        </primaryReference>
    </deposition>
    <map>
        <file sizeKb="256001" type="map" format="CCP4">emd_3885.map.gz</file>
        <dataType>Image stored as Reals</dataType>
        <dimensions>
            <numRows>400</numRows>
            <numColumns>400</numColumns>
            <numSections>400</numSections>
        </dimensions>
        <origin>
            <originRow>0</originRow>
            <originCol>0</originCol>
            <originSec>0</originSec>
        </origin>
        <limit>
            <limitRow>399</limitRow>
            <limitCol>399</limitCol>
            <limitSec>399</limitSec>
        </limit>
        <spacing>
            <spacingRow>400</spacingRow>
            <spacingCol>400</spacingCol>
            <spacingSec>400</spacingSec>
        </spacing>
        <cell>
            <cellA units="A">442.39996</cellA>
            <cellB units="A">442.39996</cellB>
            <cellC units="A">442.39996</cellC>
            <cellAlpha units="degrees">90.0</cellAlpha>
            <cellBeta units="degrees">90.0</cellBeta>
            <cellGamma units="degrees">90.0</cellGamma>
        </cell>
        <axisOrder>
            <axisOrderFast>X</axisOrderFast>
            <axisOrderMedium>Y</axisOrderMedium>
            <axisOrderSlow>Z</axisOrderSlow>
        </axisOrder>
        <statistics>
            <minimum>-0.02732106</minimum>
            <maximum>0.14460759</maximum>
            <average>0.00082460826</average>
            <std>0.0069432124</std>
        </statistics>
        <spaceGroupNumber>1</spaceGroupNumber>
        <details></details>
        <pixelSpacing>
            <pixelX units="A">1.106</pixelX>
            <pixelY units="A">1.106</pixelY>
            <pixelZ units="A">1.106</pixelZ>
        </pixelSpacing>
        <contourLevel source="author">0.045</contourLevel>
    </map>
    <supplement>
        <figureSet/>
    </supplement>
    <sample>
        <numComponents>3</numComponents>
        <name>YaxAB complex (10x YaxA + 10x YaxB)</name>
        <details>Purified with Cymal-6 detergent and reconstituted in amphipol prior to Cryo-EM.</details>
        <molWtExp units="MDa">0.85</molWtExp>
        <sampleComponentList>
            <sampleComponent componentID="1">
                <entry>protein</entry>
                <sciName>YaxAB complex (10x YaxA + 10x YaxB)</sciName>
                <molWtExp units="MDa">0.85</molWtExp>
                <protein>
                    <sciSpeciesName ncbiTaxId="630">Yersinia enterocolitica</sciSpeciesName>
                    <recombinantExpFlag>false</recombinantExpFlag>
                    <natSource/>
                    <engSource>
                        <expSystem ncbiTaxId="562">Escherichia coli</expSystem>
                    </engSource>
                    <details>Purified with Cymal-6 detergent and reconstituted in amphipol prior to Cryo-EM.</details>
                </protein>
            </sampleComponent>
            <sampleComponent componentID="2">
                <entry>protein</entry>
                <sciName>Uncharacterized protein</sciName>
                <molWtTheo units="MDa">0.045877156</molWtTheo>
                <protein>
                    <recombinantExpFlag>false</recombinantExpFlag>
                    <engSource>
                        <expSystem ncbiTaxId="630">Yersinia enterocolitica</expSystem>
                    </engSource>
                </protein>
            </sampleComponent>
            <sampleComponent componentID="3">
                <entry>protein</entry>
                <sciName>YaxB</sciName>
                <molWtTheo units="MDa">0.039248836</molWtTheo>
                <protein>
                    <recombinantExpFlag>false</recombinantExpFlag>
                    <engSource>
                        <expSystem ncbiTaxId="630">Yersinia enterocolitica</expSystem>
                    </engSource>
                </protein>
            </sampleComponent>
        </sampleComponentList>
    </sample>
    <experiment>
        <vitrification>
            <cryogenName>ETHANE</cryogenName>
            <humidity>100.0</humidity>
            <temperature units="Kelvin">20.0</temperature>
            <instrument>FEI VITROBOT MARK IV</instrument>
            <details>3 mM F-FOS Choline 8 just before vitrification
blot for 3 to 4 s
blot distance -2 to -1 mm</details>
        </vitrification>
        <imaging>
            <electronSource>FIELD EMISSION GUN</electronSource>
            <electronDose units="e/A**2">60.0</electronDose>
            <imagingMode>BRIGHT FIELD</imagingMode>
            <illuminationMode>FLOOD BEAM</illuminationMode>
            <detector>OTHER</detector>
            <microscope>FEI TITAN KRIOS</microscope>
            <specimenHolderModel>OTHER</specimenHolderModel>
            <acceleratingVoltage units="kV">300</acceleratingVoltage>
        </imaging>
        <imageAcquisition/>
        <fitting>
            <pdbEntryIdList>
                <pdbEntryId>6EK7</pdbEntryId>
            </pdbEntryIdList>
            <refProtocol>flexible</refProtocol>
            <refSpace>REAL</refSpace>
        </fitting>
        <specimenPreparation>
            <specimenState>particle</specimenState>
            <specimenConc units="mg/ml">2</specimenConc>
            <buffer>
                <ph>7.</ph>
            </buffer>
        </specimenPreparation>
    </experiment>
    <processing>
        <method>singleParticle</method>
        <reconstruction>
            <software>RELION</software>
            <resolutionByAuthor>5.5</resolutionByAuthor>
            <resolutionMethod>FSC 0.143 CUT-OFF</resolutionMethod>
        </reconstruction>
        <singleParticle>
            <appliedSymmetry>C10</appliedSymmetry>
            <numProjections>25000</numProjections>
        </singleParticle>
    </processing>
</emdEntry>
