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Yorodumi- EMDB-8866: Negative-stain reconstruction of a C-terminal truncation in Ccq1 ... -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-8866 | |||||||||
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Title | Negative-stain reconstruction of a C-terminal truncation in Ccq1 of the the S. pombe CTP complex (Ccq1 2-439, Tpz1 406-508, Poz1 2-249) | |||||||||
Map data | Negative-stain reconstruction of a C-terminal truncation in Ccq1 of the the S. pombe CTP complex (Ccq1 2-439, Tpz1 406-508, Poz1 2-249) | |||||||||
Sample |
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Function / homology | Function and homology information telomere-telomerase complex assembly / telomere cap complex / chromosome, telomeric repeat region / meiotic chromosome segregation / meiotic telomere clustering / chromosome, subtelomeric region / shelterin complex / mitotic telomere maintenance via semi-conservative replication / telomere capping / protein localization to chromosome, telomeric region ...telomere-telomerase complex assembly / telomere cap complex / chromosome, telomeric repeat region / meiotic chromosome segregation / meiotic telomere clustering / chromosome, subtelomeric region / shelterin complex / mitotic telomere maintenance via semi-conservative replication / telomere capping / protein localization to chromosome, telomeric region / telomeric DNA binding / telomere maintenance via telomerase / telomere organization / telomere maintenance / molecular adaptor activity / DNA binding / nucleoplasm / nucleus / cytosol Similarity search - Function | |||||||||
Biological species | Schizosaccharomyces pombe (fission yeast) | |||||||||
Method | single particle reconstruction / negative staining / Resolution: 25.9 Å | |||||||||
Authors | Scott HW / Kim JK / Yu C / Huang L / Qiao F / Taylor DJ | |||||||||
Citation | Journal: J Mol Biol / Year: 2017 Title: Spatial Organization and Molecular Interactions of the Schizosaccharomyces pombe Ccq1-Tpz1-Poz1 Shelterin Complex. Authors: Harry Scott / Jin-Kwang Kim / Clinton Yu / Lan Huang / Feng Qiao / Derek J Taylor / Abstract: The shelterin complex is a macromolecular assembly of proteins that binds to and protects telomeric DNA, which composes the ends of all linear chromosomes. Shelterin proteins prevent chromosome ends ...The shelterin complex is a macromolecular assembly of proteins that binds to and protects telomeric DNA, which composes the ends of all linear chromosomes. Shelterin proteins prevent chromosome ends from fusing together and from eliciting erroneous induction of DNA damage response pathways. In addition, shelterin proteins play key roles in regulating the recruitment and activation of telomerase, an enzyme that extends telomeric DNA. In fission yeast, Schizosaccharomyces pombe, interactions between the shelterin proteins Ccq1, Tpz1, and Poz1 are important for regulating telomerase-mediated telomere synthesis and thus telomere length homeostasis. Here, we used electron microscopy combined with genetic labeling to define the three-dimensional arrangement of the S. pombe Ccq1-Tpz1-Poz1 (CTP) complex. Crosslinking mass spectrometry was used to identify individual residues that are in proximity to the protein-protein interfaces of the assembled CTP complex. Together, our data provide a first glimpse into the architectural design of the CTP complex and reveals unique interactions that are important in maintaining the S. pombe telomere in a non-extendible state. | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_8866.map.gz | 1.6 MB | EMDB map data format | |
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Header (meta data) | emd-8866-v30.xml emd-8866.xml | 12.5 KB 12.5 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_8866_fsc.xml | 3.6 KB | Display | FSC data file |
Images | emd_8866.png | 15.3 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-8866 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-8866 | HTTPS FTP |
-Validation report
Summary document | emd_8866_validation.pdf.gz | 79.3 KB | Display | EMDB validaton report |
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Full document | emd_8866_full_validation.pdf.gz | 78.4 KB | Display | |
Data in XML | emd_8866_validation.xml.gz | 495 B | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-8866 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-8866 | HTTPS FTP |
-Related structure data
Related structure data | 8863C 8864C 8865C 8861 C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_8866.map.gz / Format: CCP4 / Size: 2.3 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Negative-stain reconstruction of a C-terminal truncation in Ccq1 of the the S. pombe CTP complex (Ccq1 2-439, Tpz1 406-508, Poz1 2-249) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 3.004 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : Negative-stain reconstruction of a C-terminal truncation in Ccq1 ...
Entire | Name: Negative-stain reconstruction of a C-terminal truncation in Ccq1 of the the S. pombe CTP complex (Ccq1 2-439, Tpz1 406-508, Poz1 2-249) |
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Components |
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-Supramolecule #1: Negative-stain reconstruction of a C-terminal truncation in Ccq1 ...
Supramolecule | Name: Negative-stain reconstruction of a C-terminal truncation in Ccq1 of the the S. pombe CTP complex (Ccq1 2-439, Tpz1 406-508, Poz1 2-249) type: complex / ID: 1 / Parent: 0 / Details: Complex is a dimer of trimers |
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Source (natural) | Organism: Schizosaccharomyces pombe (fission yeast) |
Recombinant expression | Organism: Escherichia coli (E. coli) |
-Experimental details
-Structure determination
Method | negative staining |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 0.036 mg/mL | ||||||||||||
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Buffer | pH: 8 Component:
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Staining | Type: NEGATIVE / Material: Uranyl acetate | ||||||||||||
Grid | Pretreatment - Type: GLOW DISCHARGE / Details: 15 mA |
-Electron microscopy
Microscope | JEOL 2200FS |
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Specialist optics | Energy filter - Name: omega in-column |
Image recording | Film or detector model: TVIPS TEMCAM-F416 (4k x 4k) / Digitization - Dimensions - Width: 4000 pixel / Digitization - Dimensions - Height: 4000 pixel / Digitization - Sampling interval: 15.6 µm / Average electron dose: 25.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |