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Yorodumi- EMDB-77809: Cryo-EM structure of Pyrococcus furiosus RNA polymerase without s... -
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Basic information
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| Title | Cryo-EM structure of Pyrococcus furiosus RNA polymerase without stalk (no Rpo4/Rpo7) | |||||||||
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Keywords | RNA polymerase / Clamp conformation / Euryarchaea / Stalk / TRANSCRIPTION | |||||||||
| Function / homology | Function and homology informationtRNA transcription by RNA polymerase III / transcription by RNA polymerase I / transcription elongation by RNA polymerase I / DNA-directed RNA polymerase complex / ribonucleoside binding / DNA-directed RNA polymerase / DNA-directed RNA polymerase activity / transcription by RNA polymerase II / protein dimerization activity / magnesium ion binding ...tRNA transcription by RNA polymerase III / transcription by RNA polymerase I / transcription elongation by RNA polymerase I / DNA-directed RNA polymerase complex / ribonucleoside binding / DNA-directed RNA polymerase / DNA-directed RNA polymerase activity / transcription by RNA polymerase II / protein dimerization activity / magnesium ion binding / DNA-templated transcription / DNA binding / zinc ion binding / cytoplasm Similarity search - Function | |||||||||
| Biological species | ![]() Pyrococcus furiosus DSM 3638 (archaea) | |||||||||
| Method | single particle reconstruction / cryo EM / Resolution: 4.56 Å | |||||||||
Authors | Fordjour GNR / Armache J-P / Murakami KS | |||||||||
| Funding support | United States, 1 items
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Citation | Journal: To Be PublishedTitle: Clamp conformational flexibility and dynamics in archaeal and eukaryotic RNA polymerases revealed by cryo-EM Authors: Fordjour GNR / Murakami K / Armache J-P / Murakami KS | |||||||||
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Structure visualization
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Downloads & links
-EMDB archive
| Map data | emd_77809.map.gz | 120.7 MB | EMDB map data format | |
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| Header (meta data) | emd-77809-v30.xml emd-77809.xml | 25.1 KB 25.1 KB | Display Display | EMDB header |
| FSC (resolution estimation) | emd_77809_fsc.xml | 13.3 KB | Display | FSC data file |
| Images | emd_77809.png | 44.4 KB | ||
| Filedesc metadata | emd-77809.cif.gz | 7.4 KB | ||
| Others | emd_77809_half_map_1.map.gz emd_77809_half_map_2.map.gz | 226.8 MB 226.8 MB | ||
| Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-77809 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-77809 | HTTPS FTP |
-Related structure data
| Related structure data | ![]() 36roMC ![]() 36rpC ![]() 36rsC ![]() 9zo4C ![]() 9zo5C ![]() 9zofC ![]() 9zohC ![]() 9zpkC ![]() 9zplC M: atomic model generated by this map C: citing same article ( |
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| Similar structure data | Similarity search - Function & homology F&H Search |
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Links
| EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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| Related items in Molecule of the Month |
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Map
| File | Download / File: emd_77809.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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| Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
| Voxel size | X=Y=Z: 0.944 Å | ||||||||||||||||||||||||||||||||||||
| Density |
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| Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
| Details | EMDB XML:
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-Supplemental data
-Half map: #1
| File | emd_77809_half_map_1.map | ||||||||||||
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| Density Histograms |
-Half map: #2
| File | emd_77809_half_map_2.map | ||||||||||||
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| Density Histograms |
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Sample components
+Entire : RNA polymerase
+Supramolecule #1: RNA polymerase
+Macromolecule #1: DNA-directed RNA polymerase subunit Rpo1N
+Macromolecule #2: DNA-directed RNA polymerase subunit beta
+Macromolecule #3: DNA-directed RNA polymerase subunit Rpo1C
+Macromolecule #4: DNA-directed RNA polymerase subunit Rpo3
+Macromolecule #5: DNA-directed RNA polymerase subunit Rpo11
+Macromolecule #6: DNA-directed RNA polymerase subunit Rpo5
+Macromolecule #7: DNA-directed RNA polymerase subunit Rpo10
+Macromolecule #8: DNA-directed RNA polymerase subunit Rpo6
+Macromolecule #9: DNA-directed RNA polymerase subunit Rpo12
+Macromolecule #10: ZINC ION
-Experimental details
-Structure determination
| Method | cryo EM |
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Processing | single particle reconstruction |
| Aggregation state | particle |
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Sample preparation
| Buffer | pH: 8 |
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| Vitrification | Cryogen name: ETHANE |
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Electron microscopy
| Microscope | FEI TALOS ARCTICA |
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| Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 50.0 e/Å2 |
| Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
| Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 0.8 µm |
| Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |
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About Yorodumi



Keywords
Pyrococcus furiosus DSM 3638 (archaea)
Authors
United States, 1 items
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Processing
FIELD EMISSION GUN


