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- EMDB-17336: Cryo EM map of the vaccinia RNA polymerase intermediate pre-initi... -
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Open data
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Basic information
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Title | Cryo EM map of the vaccinia RNA polymerase intermediate pre-initiation open promoter complex shallow conformation | |||||||||
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![]() | RNA polymerase / RNAP / Vaccinia / MPox / PIC / pre-initiation complex / TRANSCRIPTION | |||||||||
Function / homology | ![]() inorganic triphosphate phosphatase activity / mRNA 5'-triphosphate monophosphatase activity / mRNA 5'-phosphatase / polynucleotide 5'-phosphatase activity / viral transcription / RNA polymerase I activity / DNA-directed RNA polymerase complex / RNA polymerase II activity / virion component / DNA-templated transcription termination ...inorganic triphosphate phosphatase activity / mRNA 5'-triphosphate monophosphatase activity / mRNA 5'-phosphatase / polynucleotide 5'-phosphatase activity / viral transcription / RNA polymerase I activity / DNA-directed RNA polymerase complex / RNA polymerase II activity / virion component / DNA-templated transcription termination / ribonucleoside binding / DNA-directed 5'-3' RNA polymerase activity / DNA-directed RNA polymerase / mRNA guanylyltransferase activity / mRNA guanylyltransferase / mRNA (guanine-N7)-methyltransferase / mRNA 5'-cap (guanine-N7-)-methyltransferase activity / host cell cytoplasm / DNA-templated transcription / GTP binding / DNA binding / RNA binding / zinc ion binding / metal ion binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.58 Å | |||||||||
![]() | Grimm C / Jungwirth S / Fischer U | |||||||||
Funding support | 1 items
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![]() | ![]() Title: Cryo EM map and model of the vaccinia RNA polymerase intermediate pre-initiation open promoter complex (CASP target) Authors: Grimm C / Jungwirth S / Fischer U | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 107 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 33 KB 33 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 12.6 KB | Display | ![]() |
Images | ![]() | 94.9 KB | ||
Filedesc metadata | ![]() | 9.8 KB | ||
Others | ![]() ![]() | 199.9 MB 199.9 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 719.3 KB | Display | ![]() |
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Full document | ![]() | 718.9 KB | Display | |
Data in XML | ![]() | 21.7 KB | Display | |
Data in CIF | ![]() | 28.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8p0nMC ![]() 8p0jC ![]() 8p0kC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
File | ![]() | ||||||||||||||||||||
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Voxel size | X=Y=Z: 1.0635 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_17336_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_17336_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
+Entire : Vaccinia DNA-directed RNA polymerase open promoter intermediate p...
+Supramolecule #1: Vaccinia DNA-directed RNA polymerase open promoter intermediate p...
+Macromolecule #1: DNA-directed RNA polymerase 147 kDa polypeptide
+Macromolecule #2: DNA-directed RNA polymerase 133 kDa polypeptide
+Macromolecule #3: DNA-directed RNA polymerase 35 kDa subunit
+Macromolecule #4: DNA-directed RNA polymerase 22 kDa subunit
+Macromolecule #5: DNA-directed RNA polymerase 19 kDa subunit
+Macromolecule #6: DNA-directed RNA polymerase 18 kDa subunit
+Macromolecule #7: Intermediate transcription factor 3 large subunit
+Macromolecule #8: Intermediate transcription factor 3 small subunit
+Macromolecule #9: DNA-directed RNA polymerase 7 kDa subunit
+Macromolecule #10: mRNA-capping enzyme regulatory subunit OPG124
+Macromolecule #12: mRNA-capping enzyme catalytic subunit
+Macromolecule #13: DNA-directed RNA polymerase 30 kDa polypeptide
+Macromolecule #11: Non-template DNA oligomer
+Macromolecule #14: Template DNA oligomer
+Macromolecule #15: MAGNESIUM ION
+Macromolecule #16: ZINC ION
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: FEI FALCON III (4k x 4k) / Detector mode: INTEGRATING / Average electron dose: 70.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.2 µm / Nominal defocus min: 1.2 µm |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |