<?xml version="1.0" encoding="UTF-8"?>
<emdEntry accessCode="6362" version="1.9.6">
    <admin>
        <lastUpdate>2016-07-06</lastUpdate>
    </admin>
    <deposition>
        <status prior="REL">OBS</status>
        <depositionDate>2015-06-23</depositionDate>
        <depositionSite>RCSB</depositionSite>
        <processingSite>RCSB</processingSite>
        <headerReleaseDate>2015-07-01</headerReleaseDate>
        <mapReleaseDate>2016-06-29</mapReleaseDate>
        <obsoletedDate>2016-07-06</obsoletedDate>
        <details>Author has requested removal of this entry.</details>
        <title>Negative-stain electron microscopy of the full-length Thermotoga maritima FtsH</title>
        <authors>An JY, Sharif H, Barrera FN, Karabadzhak AG, Song JJ, Jung TY, Hebert H, Kang GB, Park KJ, Lee JG, Sakkiah S, Lee KW, Jeon H, Lee S, Engelman DM, Wang J, Eom SH</authors>
        <keywords>ATP-dependent proteolysis, Non-native membrane proteins, Open closed gating, TM modeling, Crystallography and electron microscopy</keywords>
        <primaryReference published="false">
            <journalArticle>
                <authors>An JY, Sharif H, Barrera FN, Karabadzhak AG, Song JJ, Jung TY, Hebert H, Kang GB, Park KJ, Lee JG, Sakkiah S, Lee KW, Jeon H, Lee S, Engelman DM, Wang J, Eom SH</authors>
                <articleTitle>Crystallographic and EM structures of FtsH and its domains suggest a reverse translocon mechanism for membrane protein extraction</articleTitle>
                <journal>To Be Published</journal>
                <volume/>
                <firstPage/>
                <lastPage/>
                <year/>
            </journalArticle>
        </primaryReference>
    </deposition>
    <map>
        <file format="CCP4" sizeKb="13185" type="map">emd_6362.map.gz</file>
        <dataType>Image stored as Reals</dataType>
        <dimensions>
            <numColumns>150</numColumns>
            <numRows>150</numRows>
            <numSections>150</numSections>
        </dimensions>
        <origin>
            <originCol>-75</originCol>
            <originRow>-75</originRow>
            <originSec>-75</originSec>
        </origin>
        <limit>
            <limitCol>74</limitCol>
            <limitRow>74</limitRow>
            <limitSec>74</limitSec>
        </limit>
        <spacing>
            <spacingCol>150</spacingCol>
            <spacingRow>150</spacingRow>
            <spacingSec>150</spacingSec>
        </spacing>
        <cell>
            <cellA units="A">312.0</cellA>
            <cellB units="A">312.0</cellB>
            <cellC units="A">312.0</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>-2.77754521</minimum>
            <maximum>7.27051163</maximum>
            <average>0.02960115</average>
            <std>0.34238788</std>
        </statistics>
        <spaceGroupNumber>1</spaceGroupNumber>
        <details>::::EMDATABANK.org::::EMD-6362::::</details>
        <pixelSpacing>
            <pixelX units="A">2.08</pixelX>
            <pixelY units="A">2.08</pixelY>
            <pixelZ units="A">2.08</pixelZ>
        </pixelSpacing>
        <contourLevel source="author">0.9</contourLevel>
        <annotationDetails>Reconstruction of full length FtsH from Thermotoga maritima</annotationDetails>
    </map>
    <supplement>
        <maskSet/>
        <sliceSet/>
        <figureSet>
            <figure>
                <file>emd_6362.png</file>
            </figure>
        </figureSet>
        <fscSet>
            <fsc>
                <file>emd_6362_fsc.xml</file>
            </fsc>
        </fscSet>
    </supplement>
    <sample>
        <numComponents>1</numComponents>
        <name>Full length FtsH from Thermotoga maritima</name>
        <compDegree>homohexamer</compDegree>
        <molWtTheo units="MDa">0.65</molWtTheo>
        <molWtMethod>size exclusion chromatography</molWtMethod>
        <molWtExp units="MDa">0.65</molWtExp>
        <sampleComponentList>
            <sampleComponent componentID="1">
                <entry>protein</entry>
                <sciName>FtsH protease</sciName>
                <molWtTheo units="MDa">0.65</molWtTheo>
                <molWtExp units="MDa">0.65</molWtExp>
                <protein>
                    <sciSpeciesName ncbiTaxId="2336">Thermotoga maritima</sciSpeciesName>
                    <recombinantExpFlag>true</recombinantExpFlag>
                    <oligomericDetails>homohexamer</oligomericDetails>
                    <externalReferences>
                        <refUniProt>Q9WZ49</refUniProt>
                    </externalReferences>
                    <natSource/>
                    <engSource>
                        <vector>pET28a</vector>
                        <expSystem ncbiTaxId="562">Escherichia coli</expSystem>
                    </engSource>
                </protein>
            </sampleComponent>
        </sampleComponentList>
    </sample>
    <experiment>
        <vitrification>
            <cryogenName>NONE</cryogenName>
            <instrument>NONE</instrument>
        </vitrification>
        <imaging>
            <astigmatism>Objective lens astigmatism was corrected at 50000 times magnification.</astigmatism>
            <electronSource>FIELD EMISSION GUN</electronSource>
            <imagingMode>BRIGHT FIELD</imagingMode>
            <nominalDefocusMin units="nm">600</nominalDefocusMin>
            <nominalDefocusMax units="nm">1700</nominalDefocusMax>
            <illuminationMode>FLOOD BEAM</illuminationMode>
            <detector>TVIPS TEMCAM-F415 (4k x 4k)</detector>
            <nominalCs units="mm">2.0</nominalCs>
            <calibratedMagnification>72165</calibratedMagnification>
            <microscope>JEOL 2100F</microscope>
            <date>09-DEC-2014</date>
            <specimenHolderModel>JEOL</specimenHolderModel>
            <acceleratingVoltage units="kV">200</acceleratingVoltage>
            <nominalMagnification>50000</nominalMagnification>
        </imaging>
        <imageAcquisition>
            <numDigitalImages>50</numDigitalImages>
        </imageAcquisition>
        <fitting/>
        <specimenPreparation>
            <staining>Grids with absorbed protein were pre-washed 3 times with DW and stained with 2% uranyl acetate for one minute.</staining>
            <specimenState>particle</specimenState>
            <specimenSupportDetails>400 mesh copper grid with thin carbon</specimenSupportDetails>
            <buffer>
                <details>50 mM HEPES, 100 mM NaCl, 0.1% glutaldehyde, 10% sucrose</details>
                <ph>7.5</ph>
            </buffer>
        </specimenPreparation>
    </experiment>
    <processing>
        <method>singleParticle</method>
        <reconstruction>
            <software>EMAN2</software>
            <ctfCorrection>Each particle</ctfCorrection>
            <resolutionByAuthor>21</resolutionByAuthor>
            <resolutionMethod>FSC 0.5, gold-standard</resolutionMethod>
        </reconstruction>
        <singleParticle>
            <numClassAverages>20</numClassAverages>
            <appliedSymmetry>C6</appliedSymmetry>
            <numProjections>2558</numProjections>
            <details>All data processing and refinement was done using the EMAN2 program.</details>
        </singleParticle>
    </processing>
</emdEntry>
