+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-7534 | |||||||||||||||||||||
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Title | Yeast RNA polymerase III intermediate open complex (iOC) | |||||||||||||||||||||
Map data | primary map | |||||||||||||||||||||
Sample |
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Biological species | Saccharomyces cerevisiae S288c (yeast) | |||||||||||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 8.5 Å | |||||||||||||||||||||
Authors | Han Y / He Y | |||||||||||||||||||||
Funding support | United States, 6 items
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Citation | Journal: Cell Discov / Year: 2018 Title: Structural visualization of RNA polymerase III transcription machineries. Authors: Yan Han / Chunli Yan / Susan Fishbain / Ivaylo Ivanov / Yuan He / Abstract: RNA polymerase III (Pol III) transcription initiation requires the action of the transcription factor IIIB (TFIIIB) and is highly regulated. Here, we determine the structures of Pol III pre- ...RNA polymerase III (Pol III) transcription initiation requires the action of the transcription factor IIIB (TFIIIB) and is highly regulated. Here, we determine the structures of Pol III pre-initiation complexes (PICs) using single particle cryo-electron microscopy (cryo-EM). We observe stable Pol III-TFIIIB complexes using nucleic acid scaffolds mimicking various functional states, in which TFIIIB tightly encircles the upstream promoter DNA. There is an intricate interaction between TFIIIB and Pol III, which stabilizes the winged-helix domains of the C34 subunit of Pol III over the active site cleft. The architecture of Pol III PIC more resembles that of the Pol II PIC than the Pol I PIC. In addition, we also obtain a 3D reconstruction of Pol III in complex with TFIIIB using the elongation complex (EC) scaffold, shedding light on the mechanism of facilitated recycling of Pol III prior to transcription re-initiation. | |||||||||||||||||||||
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_7534.map.gz | 6.7 MB | EMDB map data format | |
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Header (meta data) | emd-7534-v30.xml emd-7534.xml | 13.7 KB 13.7 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_7534_fsc.xml | 5.3 KB | Display | FSC data file |
Images | emd_7534.png | 160 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-7534 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-7534 | HTTPS FTP |
-Related structure data
Related structure data | 7530C 7531C 7532C 7533C 6cnbC 6cncC 6cndC 6cnfC 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_7534.map.gz / Format: CCP4 / Size: 11.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | primary map | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 2.23 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 : Yeast RNA polymerase III intermediate open complex (iOC)
Entire | Name: Yeast RNA polymerase III intermediate open complex (iOC) |
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Components |
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-Supramolecule #1: Yeast RNA polymerase III intermediate open complex (iOC)
Supramolecule | Name: Yeast RNA polymerase III intermediate open complex (iOC) type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#21 |
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Source (natural) | Organism: Saccharomyces cerevisiae S288c (yeast) |
Molecular weight | Theoretical: 900 KDa |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.9 |
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Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV |
-Electron microscopy
Microscope | JEOL 3200FS |
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Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Average electron dose: 77.2 e/Å2 |