<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-12519" schemaVersion="0.65" public="true">
    <admin>
        <currentStatus>REL</currentStatus>
        <keyDates>
            <depositionDate>2024-12-26</depositionDate>
            <releaseDate>2025-08-05</releaseDate>
            <updateDate>2025-08-05</updateDate>
        </keyDates>
        <title>Cryo electron micrographs of glomalin (a group I chaperonin) from Rhizophagus irregularis BGC BJ09</title>
        <correspondingAuthor private="true">
            <authorORCID>0000-0001-6786-9032</authorORCID>
            <firstName>Youchao</firstName>
            <lastName>Wang</lastName>
            <organization type="academic">State Key Laboratory of Genetic Engineering, School of Life Sciences, Fudan University</organization>
            <townOrCity>Shanghai</townOrCity>
            <country>China</country>
            <postOrZipCode>2000438</postOrZipCode>
        </correspondingAuthor>
        <principalInvestigator private="true">
            <authorORCID>0000-0002-3098-2928</authorORCID>
            <firstName>Wenfeng</firstName>
            <lastName>Tan</lastName>
            <organization type="academic">State Environmental Protection Key Laboratory of Soil Health and Green Remediation, College of Resources and Environment, Huazhong Agricultural University</organization>
            <townOrCity>Wuhan</townOrCity>
            <country>China</country>
            <postOrZipCode>430070</postOrZipCode>
        </principalInvestigator>
        <authorsList>
            <author authorORCID="0000-0001-6786-9032">Wang Y</author>
            <author authorORCID="0009-0009-2436-024X">Jia M</author>
            <author authorORCID="0000-0002-3098-2928">Tan W</author>
        </authorsList>
        <grantSupport>
            <grantReference>
                <fundingBody>National Natural Science Foundation of China (NSFC)</fundingBody>
                <code>32061123007</code>
                <country>China</country>
            </grantReference>
        </grantSupport>
        <datasetSize units="TB">2.4</datasetSize>
        <entryDOI>10.6019/EMPIAR-12519</entryDOI>
        <experimentType>EMDB</experimentType>
        <scale>molecule</scale>
    </admin>
    <crossReferences>
        <relatedEMDBEntries>
            <emdbEntry>EMD-62049</emdbEntry>
        </relatedEMDBEntries>
        <citationList>
            <universalCitation>
                <journalCitation published="false" preprint="false">
                    <author authorORCID="0009-0009-2436-024X" order="1">Jia M</author>
                    <author authorORCID="0000-0001-6786-9032" order="2">Wang Y</author>
                    <author authorORCID="0000-0002-1456-8284" order="3">He J</author>
                    <author order="4">Chou SH</author>
                    <author order="5">Luo D</author>
                    <author order="6">Fang L</author>
                    <author order="7">Hou J</author>
                    <author order="8">Fan Y</author>
                    <author order="9">Zhang W</author>
                    <author order="10">Chen H</author>
                    <author authorORCID="0000-0002-4743-6077" order="11">Zhou D</author>
                    <author order="12">Liu Y</author>
                    <author order="13">Feng Y</author>
                    <author order="14">Koopal L</author>
                    <author authorORCID="0000-0002-3098-2928" order="15">Tan W</author>
                    <title>Soil aggregates stability is evidently enhanced by super-binding of the N-terminal disordered tail of glomalin to soil minerals</title>
                    <journal>Soil Biology and Biochemistry</journal>
                    <journalAbbreviation></journalAbbreviation>
                    <country>China</country>
                    <volume>210</volume>
                    <year>2025</year>
                    <externalReferences type="doi">10.1016/j.soilbio.2025.109908</externalReferences>
                </journalCitation>
            </universalCitation>
        </citationList>
    </crossReferences>
    <imageSet>
        <name>Cryo electron micrographs of glomalin (a group I chaperonin) from Rhizophagus irregularis BGC BJ09</name>
        <directory>/data/movies</directory>
        <category>micrographs - multiframe</category>
        <headerFormat>TIFF</headerFormat>
        <dataFormat>TIFF</dataFormat>
        <numImagesOrTiltSeries>3806</numImagesOrTiltSeries>
        <framesPerImage>40</framesPerImage>
        <frameRange>
            <frameRangeMin>1</frameRangeMin>
            <frameRangeMax>40</frameRangeMax>
        </frameRange>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>5760</imageWidth>
            <pixelWidth>1.1</pixelWidth>
            <imageHeight>4092</imageHeight>
            <pixelHeight>1.1</pixelHeight>
        </dimensions>
        <details></details>
        <segmentationList/>
        <micrographsFilePattern>data/movies/20220919_glomalin_*.tiff</micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Gain reference for cryo electron micrographs of glomalin (a group I chaperonin) from Rhizophagus irregularis BGC BJ09</name>
        <directory>/data/gainRefer</directory>
        <category>micrographs - single frame</category>
        <headerFormat>MRC</headerFormat>
        <dataFormat>MRC</dataFormat>
        <numImagesOrTiltSeries>1</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>variable</imageWidth>
            <pixelWidth>variable</pixelWidth>
            <imageHeight>variable</imageHeight>
            <pixelHeight>variable</pixelHeight>
        </dimensions>
        <details>This gain reference doesn't need rotation and flipping.</details>
        <segmentationList/>
        <micrographsFilePattern>data/gainRefer/K3_gain.mrc</micrographsFilePattern>
        <pickedParticlesFilePattern></pickedParticlesFilePattern>
        <pickedParticlesDirectory></pickedParticlesDirectory>
    </imageSet>
    <imageSet>
        <name>Particles for cryo electron micrographs of glomalin (a group I chaperonin) from Rhizophagus irregularis BGC BJ09</name>
        <directory>/data/cryosparc</directory>
        <category>picked particles - single frame - unprocessed</category>
        <headerFormat>MRCS</headerFormat>
        <dataFormat>MRCS</dataFormat>
        <numImagesOrTiltSeries>2890</numImagesOrTiltSeries>
        <framesPerImage>1</framesPerImage>
        <voxelType>UNSIGNED BYTE</voxelType>
        <dimensions>
            <imageWidth>11520</imageWidth>
            <pixelWidth>1.1</pixelWidth>
            <imageHeight>8184</imageHeight>
            <pixelHeight>1.1</pixelHeight>
        </dimensions>
        <details>The folder cryosparc/J1 is "Imported particles" of CryoSPARC-v4.3.1, and the particles is imported from "Particle extraction" of relion-v3.1.3.
The folder cryosparc/J14 is "Homogeneous Refinement" of CryoSPARC-v4.3.1, and this "Homogeneous Refinement" which imposed D7 symmetry is the final refinement of glomalin at a resolution of 2.85 angstrom.</details>
        <segmentationList/>
        <micrographsFilePattern></micrographsFilePattern>
        <pickedParticlesFilePattern>data/cryosparc/J14/P13_J14_passthrough_particles.cs</pickedParticlesFilePattern>
        <pickedParticlesDirectory>data/cryosparc/J1/imported</pickedParticlesDirectory>
    </imageSet>
</entry>
