<entry xmlns="http://pdbe.org/empiar" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="https://ftp.ebi.ac.uk/pub/databases/emtest/empiar/schema/empiar.xsd" accessionCode="EMPIAR-11211" schemaVersion="0.65" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2022-09-06</depositionDate>
            <releaseDate>2023-09-21</releaseDate>
            <updateDate>2024-02-27</updateDate>
        </keyDates>
        <title>Single-particle cryo-EM dataset of ALC1 bound to an asymmetric, site-specifically PARylated nucleosome</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0003-3405-6021</authorORCID>
            <firstName>Guillaume</firstName>
            <lastName>Gaullier</lastName>
            <organization type="academic">Université Toulouse 3</organization>
            <townOrCity>Toulouse</townOrCity>
            <country>France</country>
            <postOrZipCode>31000</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0001-6807-8654</authorORCID>
            <firstName>Sebastian</firstName>
            <lastName>Deindl</lastName>
            <organization type="academic">Uppsala University</organization>
            <street>Husargatan 3</street>
            <townOrCity>Uppsala</townOrCity>
            <country>Sweden</country>
            <postOrZipCode>751 24</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0000-0001-6896-3506">Bacic L</author>
            <author authorORCID="0000-0003-3405-6021">Gaullier G</author>
            <author authorORCID="0000-0001-6807-8654">Deindl S</author>
        </authorsList>
        <grantSupport>
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                <fundingBody></fundingBody>
                <code></code>
                <country></country>
            </grantReference>
        </grantSupport>
        <datasetSize units="TB">8.3</datasetSize>
        <entryDOI>10.6019/EMPIAR-11211</entryDOI>
        <experimentType>EMDB</experimentType>
        <scale>molecule</scale>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-15777</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="false" preprint="false">
                    <author authorORCID="0000-0001-6896-3506" order="1">Bacic L</author>
                    <title>TBD</title>
                    <journal></journal>
                    <journalAbbreviation></journalAbbreviation>
                    <country></country>
                    <externalReferences type="doi">10.1038/s41467-024-45237-8</externalReferences>
                    <externalReferences type="pubmed">38307862</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
        <relatedEmpiarEntries>
            <empiarEntry>EMPIAR-10739</empiarEntry>
            <empiarEntry>EMPIAR-10465</empiarEntry>
        </relatedEmpiarEntries>
    </crossReferences>
    <imageSet>
        <name>Raw movies from grid 1</name>
        <directory>/data/grid-1</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>13668</numImagesOrTiltSeries>
        <framesPerImage>40</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>0.8617</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>0.8617</pixelHeight>
        </dimensions>
        <details>Movies from grid 1 and final set of particles from both grids.</details>
        <segmentationList/>
        <micrographsFilePattern>data/grid-1/Images-Disc1/GridSquare_*/Data/*_fractions.tiff</micrographsFilePattern>
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        <pickedParticlesDirectory>data/P1-J40</pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Raw movies from grid 2</name>
        <directory>/data/grid-2</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>8487</numImagesOrTiltSeries>
        <framesPerImage>40</framesPerImage>
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        <dimensions>
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            <pixelWidth>0.8617</pixelWidth>
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        <details>Movies from grid 2 and final set of particles from both grids.</details>
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        <pickedParticlesFilePattern>data/P1-J40/P1-J40.star</pickedParticlesFilePattern>
        <pickedParticlesDirectory>data/P1-J40</pickedParticlesDirectory>
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    <imageSet>
        <name>Final set of particles after refinement in cryoSPARC</name>
        <directory>/data/P1-J40</directory>
        <category>picked particles - single frame - processed</category>
        <headerFormat>MRCS</headerFormat>
        <dataFormat>MRCS</dataFormat>
        <numImagesOrTiltSeries>212256</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
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        <dimensions>
            <imageWidth>256</imageWidth>
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            <imageHeight>256</imageHeight>
            <pixelHeight>0.8617</pixelHeight>
        </dimensions>
        <details>Final set of particles that produced the map in EMD-15777 after refinement in cryoSPARC.</details>
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        <micrographsFilePattern>data/grid-*/Images-Disc1/GridSquare_*/Data/*_fractions.tiff</micrographsFilePattern>
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        <pickedParticlesDirectory>data/P1-J40</pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Intermediate set of particles after classification in RELION, before 3DVA clustering in cryoSPARC</name>
        <directory>/data/job067</directory>
        <category>picked particles - single frame - processed</category>
        <headerFormat>MRCS</headerFormat>
        <dataFormat>MRCS</dataFormat>
        <numImagesOrTiltSeries>739042</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>256</imageWidth>
            <pixelWidth>0.8617</pixelWidth>
            <imageHeight>256</imageHeight>
            <pixelHeight>0.8617</pixelHeight>
        </dimensions>
        <details>Intermediate set of particles obtained after classification in RELION. This was the input of cryoSPARC 3DVA and clustering.</details>
        <segmentationList/>
        <micrographsFilePattern>data/grid-*/Images-Disc1/GridSquare_*/Data/*_fractions.tiff</micrographsFilePattern>
        <pickedParticlesFilePattern>data/job067/job067.star</pickedParticlesFilePattern>
        <pickedParticlesDirectory>data/job067</pickedParticlesDirectory>
    </imageSet>
</entry>
