<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-13009" schemaVersion="0.65" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2025-08-27</depositionDate>
            <releaseDate>2025-12-07</releaseDate>
            <updateDate>2025-12-07</updateDate>
        </keyDates>
        <title>Cryo electron tomography of wild-type Drosophila nephrocytes</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0002-8067-6611</authorORCID>
            <firstName>Achilleas</firstName>
            <middleName>S.</middleName>
            <lastName>Frangakis</lastName>
            <organization type="academic">Buchmann Institute for Molecular Life Sciences and Institute of Biophysics, Goethe University Frankfurt</organization>
            <street>Max-von-Laue Str. 15</street>
            <townOrCity>Frankfurt am Main</townOrCity>
            <stateOrProvince>Hessen</stateOrProvince>
            <country>Germany</country>
            <postOrZipCode>60438</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0002-8067-6611</authorORCID>
            <firstName>Achilleas</firstName>
            <middleName>S.</middleName>
            <lastName>Frangakis</lastName>
            <organization type="academic">Buchmann Institute for Molecular Life Sciences and Institute of Biophysics, Goethe University Frankfurt</organization>
            <townOrCity>Frankfurt am Main</townOrCity>
            <country>Germany</country>
            <postOrZipCode>60438</postOrZipCode>
        </principalInvestigator>
        <principalInvestigator private="true">
            <authorORCID>0000-0002-0441-7749</authorORCID>
            <firstName>Tobias</firstName>
            <lastName>Hermle</lastName>
            <organization type="academic">Renal Division, Department of Medicine, Faculty of Medicine and Medical Center - University of Freiburg</organization>
            <street>Breisacher Str. 113</street>
            <townOrCity>Freiburg</townOrCity>
            <stateOrProvince>Baden-Württemberg</stateOrProvince>
            <country>Germany</country>
            <postOrZipCode>79106</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0009-0008-4443-4341">Moser D</author>
            <author authorORCID="0009-0003-6288-7794">Lang K</author>
            <author authorORCID="0009-0002-4290-0202">Birtasu AN</author>
            <author authorORCID="0000-0002-7851-754X">Grahammer F</author>
            <author authorORCID="0000-0001-6027-0094">Helmstaedter M</author>
            <author authorORCID="0000-0001-7067-8958">Scheffer MP</author>
            <author authorORCID="0000-0002-0441-7749">Hermle T</author>
            <author authorORCID="0000-0002-8067-6611">Frangakis AF</author>
        </authorsList>
        <grantSupport>
            <grantReference>
                <fundingBody>German Research Foundation (DFG)</fundingBody>
                <code>GRK 2566/1, CRC 1192, GR3933/1-1, TRR- 422, FR 1653/14-1, HE 7456/7-1, SFB 1453/431984000, HE 7456/6-1</code>
                <country>Germany</country>
            </grantReference>
        </grantSupport>
        <datasetSize units="TB">1.5</datasetSize>
        <entryDOI>10.6019/EMPIAR-13009</entryDOI>
        <experimentType>EMDB</experimentType>
        <scale>cell</scale>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-53557</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="true" preprint="true">
                    <author authorORCID="0009-0008-4443-4341" order="1">Moser D</author>
                    <author authorORCID="0009-0003-6288-7794" order="2">Lang K</author>
                    <author authorORCID="0009-0002-4290-0202" order="3">Birtasu AN</author>
                    <author authorORCID="0000-0002-7851-754X" order="4">Grahammer F</author>
                    <author authorORCID="0000-0001-6027-0094" order="5">Helmstaedter M</author>
                    <author authorORCID="0000-0001-7067-8958" order="6">Scheffer MP</author>
                    <author authorORCID="0000-0002-0441-7749" order="7">Hermle T</author>
                    <author authorORCID="0000-0002-8067-6611" order="8">Frangakis AF</author>
                    <title>The slit diaphragm in Drosophila exhibits a bilayered, fishnet architecture</title>
                    <journal></journal>
                    <journalAbbreviation></journalAbbreviation>
                    <country></country>
                    <externalReferences type="doi">10.1038/s41467-025-64347-5</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>Unaligned multi-frame micrographs of wild-type nephrocytes displaying slit diaphragms</name>
        <directory>/data/frames</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>52</numImagesOrTiltSeries>
        <framesPerImage>17</framesPerImage>
        <frameRange>
            <frameRangeMin>16</frameRangeMin>
            <frameRangeMax>19</frameRangeMax>
        </frameRange>
        <voxelType>SIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>11520</imageWidth>
            <pixelWidth>1.339</pixelWidth>
            <imageHeight>8184</imageHeight>
            <pixelHeight>1.339</pixelHeight>
        </dimensions>
        <details>Unaligned multi-frame micrographs acquired in super-resolution mode (pixel size 1.34A), with 41-58 micrographs per tilt-series. The corresponding .mdoc files containing the metadata for each tilt-series are in the subdirecory "mdoc", following the naming tomoXX.mrc.mdoc, with XX corresponding to the tilt-series ID.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Unaligned tilt-series and alignment metadata</name>
        <directory>/data/tilt_series_alignment</directory>
        <category>tilt series</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>17</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>2.679</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>2.679</pixelHeight>
        </dimensions>
        <details>Unaligned tilt-series (tomoXX.st) and IMOD's etomo alignment metadata for each tilt-series (tomoXX.xf, tomoXX.tlt). XX corresponds to the tilt-series ID.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Reconstructed tomograms of wild-type nephrocytes displaying slit diaphragms</name>
        <directory>/data/tomograms</directory>
        <category>reconstructed volumes</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>17</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>32 BIT FLOAT</voxelType>
        <dimensions>
            <imageWidth>1024</imageWidth>
            <pixelWidth>10.72</pixelWidth>
            <imageHeight>1440</imageHeight>
            <pixelHeight>10.72</pixelHeight>
        </dimensions>
        <details>Reconstructed volumes of wild-type nephrocytes displaying slit diaphragms (rec_tomoXX.mrc, XX corresponds to tilt-series IDs).</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
</entry>
