<?xml version="1.0" encoding="UTF-8"?>
<emdEntry accessCode="5240" version="1.9.6">
    <admin>
        <lastUpdate>2013-01-16</lastUpdate>
    </admin>
    <deposition>
        <status prior="HPUB">OBS</status>
        <depositionDate>2010-10-14</depositionDate>
        <depositionSite>RCSB</depositionSite>
        <processingSite>RCSB</processingSite>
        <headerReleaseDate>2011-03-09</headerReleaseDate>
        <obsoletedDate>2013-01-16</obsoletedDate>
        <supersededByList>
            <entry>EMD-5405</entry>
        </supersededByList>
        <details>Hold period expired after header release. Author chose not to continue with entry. Map was never released.</details>
        <title>Bacteriophage P4 procapsid</title>
        <authors>Dokland T, Butcher SJ, Chandramouli P, Dearborn AD, Laurinmaki P, Rodenburg CM, Wang S</authors>
        <keywords>virus, phage, capsid, procapsid, icosahedral reconstruction, assembly, size determination</keywords>
        <primaryReference published="false">
            <journalArticle>
                <authors>Dokland T, Butcher SJ, Chandramouli P, Dearborn AD, Laurinmaki P, Rodenburg CM, Wang S</authors>
                <articleTitle>Structure and assembly of bacteriophage P2 and P4 procapsids: function of size responsiveness mutations</articleTitle>
                <journal>To Be Published</journal>
                <volume/>
                <firstPage/>
                <lastPage/>
                <year/>
            </journalArticle>
        </primaryReference>
    </deposition>
    <map>
        <file format="CCP4" sizeKb="39367" type="map">emd_5240.map.gz</file>
        <dataType>Image stored as Reals</dataType>
        <dimensions>
            <numColumns>216</numColumns>
            <numRows>216</numRows>
            <numSections>216</numSections>
        </dimensions>
        <origin>
            <originCol>-108</originCol>
            <originRow>-108</originRow>
            <originSec>-108</originSec>
        </origin>
        <limit>
            <limitCol>107</limitCol>
            <limitRow>107</limitRow>
            <limitSec>107</limitSec>
        </limit>
        <spacing>
            <spacingCol>216</spacingCol>
            <spacingRow>216</spacingRow>
            <spacingSec>216</spacingSec>
        </spacing>
        <cell>
            <cellA units="A">589.68</cellA>
            <cellB units="A">589.68</cellB>
            <cellC units="A">589.68</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>-1.79996347</minimum>
            <maximum>5.32810688</maximum>
            <average>-0.26205209</average>
            <std>0E-8</std>
        </statistics>
        <spaceGroupNumber>1</spaceGroupNumber>
        <details>EMAN 1/17/2008 8:40                                                             EMAN 1/18/2008 9:23 EMAN 1/17/2008 8:40                                         EMAN 3/20/2010 11:43 EMAN 1/17/2008 8:40 ; Created by IMAGIC: MRC image = P4pro_8A_cycle4_lp6A_full_2f.mrc  14-10-20 12:23:44 ;</details>
        <pixelSpacing>
            <pixelX units="A">2.73</pixelX>
            <pixelY units="A">2.73</pixelY>
            <pixelZ units="A">2.73</pixelZ>
        </pixelSpacing>
        <contourLevel source="author">2.3</contourLevel>
        <annotationDetails>Twofold view of half map of bacteriophage P4 procapsid</annotationDetails>
    </map>
    <supplement>
        <maskSet/>
        <sliceSet/>
        <figureSet/>
        <fscSet/>
    </supplement>
    <sample>
        <numComponents>2</numComponents>
        <name>Bacteriophage P4 procapsid</name>
        <compDegree>icosahedral T 4 symmetry</compDegree>
        <molWtTheo units="MDa">5.6</molWtTheo>
        <sampleComponentList>
            <sampleComponent componentID="1">
                <entry>protein</entry>
                <sciName>gpN</sciName>
                <synName>capsid protein</synName>
                <molWtTheo units="MDa">0.0402</molWtTheo>
                <details>The virus contains 240 copies of gpN and 60 or 120 copies of Sid arranged on a T 4 icosahedral lattice</details>
                <protein>
                    <sciSpeciesName>n/a</sciSpeciesName>
                    <recombinantExpFlag>true</recombinantExpFlag>
                    <numCopies>420</numCopies>
                    <externalReferences/>
                    <natSource>
                        <cell>Escherichia coli</cell>
                    </natSource>
                    <engSource>
                        <vector>pET16</vector>
                        <expSystem>Escherichia coli</expSystem>
                    </engSource>
                </protein>
            </sampleComponent>
        </sampleComponentList>
    </sample>
    <experiment>
        <vitrification>
            <cryogenName>ETHANE</cryogenName>
            <instrument>HOMEMADE PLUNGER</instrument>
        </vitrification>
        <imaging>
            <electronSource>FIELD EMISSION GUN</electronSource>
            <imagingMode>BRIGHT FIELD</imagingMode>
            <nominalDefocusMin units="nm">1000</nominalDefocusMin>
            <nominalDefocusMax units="nm">3000</nominalDefocusMax>
            <illuminationMode>FLOOD BEAM</illuminationMode>
            <specimenHolder>Eucentric</specimenHolder>
            <detector>KODAK SO-163 FILM</detector>
            <nominalCs units="mm">2.0</nominalCs>
            <tiltAngleMin units="degrees">0</tiltAngleMin>
            <calibratedMagnification>50000</calibratedMagnification>
            <tiltAngleMax units="degrees">0</tiltAngleMax>
            <microscope>FEI TECNAI F20</microscope>
            <specimenHolderModel>GATAN LIQUID NITROGEN</specimenHolderModel>
            <acceleratingVoltage units="kV">200</acceleratingVoltage>
            <nominalMagnification>50000</nominalMagnification>
        </imaging>
        <imageAcquisition>
            <odRange>2</odRange>
            <scanner>NIKON SUPER COOLSCAN 9000</scanner>
            <numDigitalImages>17</numDigitalImages>
            <samplingSize units="microns">12.7</samplingSize>
            <quantBitNumber>16</quantBitNumber>
        </imageAcquisition>
        <fitting/>
        <specimenPreparation>
            <specimenSupportDetails>lacey carbon film</specimenSupportDetails>
            <specimenState>particle</specimenState>
        </specimenPreparation>
    </experiment>
    <processing>
        <method>singleParticle</method>
        <reconstruction>
            <algorithm>Projection matching</algorithm>
            <software>EMAN</software>
            <ctfCorrection>Each image CTFIT</ctfCorrection>
            <resolutionByAuthor>9.5</resolutionByAuthor>
            <resolutionMethod>FSC 0.5</resolutionMethod>
        </reconstruction>
        <singleParticle>
            <numProjections>2286</numProjections>
            <numClassAverages>207</numClassAverages>
            <appliedSymmetry>I</appliedSymmetry>
        </singleParticle>
    </processing>
</emdEntry>
