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Yorodumi- EMDB-63729: Structural Basis of Pausing During Transcription Initiation in My... -
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Basic information
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| Title | Structural Basis of Pausing During Transcription Initiation in Mycobacterium tuberculosis | |||||||||
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Keywords | RNA polymerase / Initiation complex / Pausing / Mycobacterium tuberculosis / Cryo-EM / TRANSCRIPTION/DNA/RNA / TRANSCRIPTION-DNA-RNA complex | |||||||||
| Function / homology | Function and homology informationAntimicrobial action and antimicrobial resistance in Mtb / biological process involved in interaction with host / rRNA transcription / sigma factor activity / bacterial-type RNA polymerase core enzyme binding / cytosolic DNA-directed RNA polymerase complex / DNA-directed RNA polymerase complex / peptidoglycan-based cell wall / DNA-templated transcription initiation / ribonucleoside binding ...Antimicrobial action and antimicrobial resistance in Mtb / biological process involved in interaction with host / rRNA transcription / sigma factor activity / bacterial-type RNA polymerase core enzyme binding / cytosolic DNA-directed RNA polymerase complex / DNA-directed RNA polymerase complex / peptidoglycan-based cell wall / DNA-templated transcription initiation / ribonucleoside binding / DNA-directed RNA polymerase / DNA-directed RNA polymerase activity / response to heat / protein dimerization activity / response to xenobiotic stimulus / response to antibiotic / DNA-templated transcription / regulation of DNA-templated transcription / magnesium ion binding / DNA binding / zinc ion binding / plasma membrane / cytosol / cytoplasm Similarity search - Function | |||||||||
| Biological species | Mycobacterium tuberculosis H37Rv (bacteria) | |||||||||
| Method | single particle reconstruction / cryo EM / Resolution: 3.47 Å | |||||||||
Authors | Zheng LT | |||||||||
| Funding support | China, 1 items
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Citation | Journal: To Be PublishedTitle: Structural Basis of Pausing During Transcription Initiation in Mycobacterium tuberculosis Authors: Zheng LT | |||||||||
| History |
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Structure visualization
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Downloads & links
-EMDB archive
| Map data | emd_63729.map.gz | 62.1 MB | EMDB map data format | |
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| Header (meta data) | emd-63729-v30.xml emd-63729.xml | 27.3 KB 27.3 KB | Display Display | EMDB header |
| FSC (resolution estimation) | emd_63729_fsc.xml | 10.6 KB | Display | FSC data file |
| Images | emd_63729.png | 17.4 KB | ||
| Filedesc metadata | emd-63729.cif.gz | 8.6 KB | ||
| Others | emd_63729_half_map_1.map.gz emd_63729_half_map_2.map.gz | 115.9 MB 115.9 MB | ||
| Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-63729 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-63729 | HTTPS FTP |
-Validation report
| Summary document | emd_63729_validation.pdf.gz | 976.9 KB | Display | EMDB validaton report |
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| Full document | emd_63729_full_validation.pdf.gz | 976.5 KB | Display | |
| Data in XML | emd_63729_validation.xml.gz | 19.1 KB | Display | |
| Data in CIF | emd_63729_validation.cif.gz | 24.5 KB | Display | |
| Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-63729 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-63729 | HTTPS FTP |
-Related structure data
| Related structure data | ![]() 9m98MC ![]() 9m9dC ![]() 9m9eC 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_63729.map.gz / Format: CCP4 / Size: 125 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: 0.89 Å | ||||||||||||||||||||||||||||||||||||
| Density |
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| Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
| Details | EMDB XML:
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-Supplemental data
-Half map: #2
| File | emd_63729_half_map_1.map | ||||||||||||
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| Density Histograms |
-Half map: #1
| File | emd_63729_half_map_2.map | ||||||||||||
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Sample components
+Entire : sigE_CarD_RNAP_RNA6
+Supramolecule #1: sigE_CarD_RNAP_RNA6
+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: ECF RNA polymerase sigma factor SigE
+Macromolecule #6: RNA polymerase-binding transcription factor CarD
+Macromolecule #7: DNA (48-MER)
+Macromolecule #8: DNA (48-MER)
+Macromolecule #9: RNA (5'-R(*CP*CP*UP*CP*GP*A)-3')
+Macromolecule #10: MAGNESIUM ION
+Macromolecule #11: 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
| Concentration | 6 mg/mL | ||||||||||||
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| Buffer | pH: 7 Component:
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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: GATAN K2 SUMMIT (4k x 4k) / Detector mode: SUPER-RESOLUTION / Average exposure time: 2.4 sec. / Average electron dose: 55.0 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: 2.0 µm / Nominal defocus min: 1.2 µm |
| Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |
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About Yorodumi



Keywords
Mycobacterium tuberculosis H37Rv (bacteria)
Authors
China, 1 items
Citation








Z (Sec.)
Y (Row.)
X (Col.)




































Processing
FIELD EMISSION GUN

