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Yorodumi- EMDB-74513: E. coli RNA polymerase elongation complex containing the unnatura... -
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Basic information
| Entry | ![]() | ||||||||||||||||||
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| Title | E. coli RNA polymerase elongation complex containing the unnatural dP:Z*TP base pair in a trigger-loop-open conformation (a). | ||||||||||||||||||
Map data | E. coli RNA polymerase elongation complex containing the unnatural dP:Z*TP base pair in a trigger-loop-open conformation. | ||||||||||||||||||
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Keywords | E. coli RNA polymerase elongation complex containing the unnatural dP:Z*TP base pair in a trigger-loop-open conformation (a) / TRANSCRIPTION / TRANSCRIPTION-DNA-RNA complex | ||||||||||||||||||
| Function / homology | Function and homology informationRNA polymerase complex / submerged biofilm formation / cellular response to cell envelope stress / regulation of DNA-templated transcription initiation / bacterial-type flagellum assembly / bacterial-type RNA polymerase core enzyme binding / cytosolic DNA-directed RNA polymerase complex / bacterial-type flagellum-dependent cell motility / nitrate assimilation / regulation of DNA-templated transcription elongation ...RNA polymerase complex / submerged biofilm formation / cellular response to cell envelope stress / regulation of DNA-templated transcription initiation / bacterial-type flagellum assembly / bacterial-type RNA polymerase core enzyme binding / cytosolic DNA-directed RNA polymerase complex / bacterial-type flagellum-dependent cell motility / nitrate assimilation / regulation of DNA-templated transcription elongation / transcription elongation factor complex / DNA-directed RNA polymerase complex / cell motility / transcription antitermination / DNA-templated transcription initiation / ribonucleoside binding / DNA-directed RNA polymerase / DNA-directed RNA polymerase activity / response to heat / protein-containing complex assembly / intracellular iron ion homeostasis / protein dimerization activity / response to antibiotic / magnesium ion binding / DNA-templated transcription / DNA binding / zinc ion binding / membrane / cytosol / cytoplasm Similarity search - Function | ||||||||||||||||||
| Biological species | ![]() | ||||||||||||||||||
| Method | single particle reconstruction / cryo EM / Resolution: 2.6 Å | ||||||||||||||||||
Authors | Qingrong L / Seteven AB / Dong W | ||||||||||||||||||
| Funding support | United States, 5 items
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Citation | Journal: To Be PublishedTitle: Structural Basis of Transcription of the Hachimoji Eight-Letter Alphabet by E. coli RNA Polymerase Authors: Qingrong L / Seteven AB / Dong W | ||||||||||||||||||
| History |
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Structure visualization
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Downloads & links
-EMDB archive
| Map data | emd_74513.map.gz | 230.3 MB | EMDB map data format | |
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| Header (meta data) | emd-74513-v30.xml emd-74513.xml | 28.5 KB 28.5 KB | Display Display | EMDB header |
| FSC (resolution estimation) | emd_74513_fsc.xml | 13.2 KB | Display | FSC data file |
| Images | emd_74513.png | 56.6 KB | ||
| Filedesc metadata | emd-74513.cif.gz | 8.3 KB | ||
| Others | emd_74513_half_map_1.map.gz emd_74513_half_map_2.map.gz | 226.7 MB 226.7 MB | ||
| Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-74513 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-74513 | HTTPS FTP |
-Related structure data
| Related structure data | ![]() 9zp1MC ![]() 9zp2C ![]() 9zp3C 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_74513.map.gz / Format: CCP4 / Size: 244.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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| Annotation | E. coli RNA polymerase elongation complex containing the unnatural dP:Z*TP base pair in a trigger-loop-open conformation. | ||||||||||||||||||||||||||||||||||||
| Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
| Voxel size | X=Y=Z: 0.743 Å | ||||||||||||||||||||||||||||||||||||
| Density |
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| Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
| Details | EMDB XML:
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-Supplemental data
-Half map: E. coli RNA polymerase elongation complex containing the...
| File | emd_74513_half_map_1.map | ||||||||||||
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| Annotation | E. coli RNA polymerase elongation complex containing the unnatural dP:Z*TP base pair in a trigger-loop-open conformation. | ||||||||||||
| Projections & Slices |
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| Density Histograms |
-Half map: E. coli RNA polymerase elongation complex containing the...
| File | emd_74513_half_map_2.map | ||||||||||||
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| Annotation | E. coli RNA polymerase elongation complex containing the unnatural dP:Z*TP base pair in a trigger-loop-open conformation. | ||||||||||||
| Projections & Slices |
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| Density Histograms |
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Sample components
+Entire : E. coli RNA polymerase elongation complex containing the unnatura...
+Supramolecule #1: E. coli RNA polymerase elongation complex containing the unnatura...
+Macromolecule #1: DNA-directed RNA polymerase subunit alpha
+Macromolecule #2: DNA-directed RNA polymerase subunit beta
+Macromolecule #3: DNA-directed RNA polymerase subunit beta'
+Macromolecule #4: DNA-directed RNA polymerase subunit omega
+Macromolecule #5: Non-template strand DNA
+Macromolecule #7: Template strand DNA
+Macromolecule #6: RNA
+Macromolecule #8: ZINC ION
+Macromolecule #9: MAGNESIUM ION
+Macromolecule #10: [[(2~{R},3~{R},4~{R},5~{S})-5-(5-aminocarbonyl-6-azanyl-2-oxidany...
+Macromolecule #11: water
-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: 7.5 |
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| Vitrification | Cryogen name: ETHANE |
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Electron microscopy
| Microscope | TFS KRIOS |
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| Image recording | Film or detector model: TFS FALCON 4i (4k x 4k) / Average electron dose: 30.0 e/Å2 |
| Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
| Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm |
| Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Keywords
Authors
United States, 5 items
Citation






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Processing
FIELD EMISSION GUN


