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Open data
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Basic information
| Entry | ![]() | |||||||||||||||||||||
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| Title | PAO1 wild-type ribosome, R, reference map | |||||||||||||||||||||
Map data | PAO1 wild-type ribosome, R, reference map | |||||||||||||||||||||
Sample |
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Keywords | Ribosome / PAO1 / wild type / antibiotic resistance | |||||||||||||||||||||
| Function / homology | Function and homology informationtransferase activity / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / small ribosomal subunit rRNA binding / ribosomal large subunit assembly / cytosolic small ribosomal subunit / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit ...transferase activity / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / small ribosomal subunit rRNA binding / ribosomal large subunit assembly / cytosolic small ribosomal subunit / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / tRNA binding / negative regulation of translation / rRNA binding / structural constituent of ribosome / ribosome / translation / ribonucleoprotein complex / mRNA binding / RNA binding / cytoplasm / cytosol Similarity search - Function | |||||||||||||||||||||
| Biological species | Pseudomonas aeruginosa PAO1 (bacteria) | |||||||||||||||||||||
| Method | single particle reconstruction / cryo EM / Resolution: 2.46 Å | |||||||||||||||||||||
Authors | Mesa P / Montoya G | |||||||||||||||||||||
| Funding support | Denmark, European Union, 6 items
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Citation | Journal: To Be PublishedTitle: Detuning of the Ribosome Conformational Landscape Promotes Antibiotic Resistance and Collateral Sensitivity. Authors: Mesa P / Jimenez-Fernandez A / La Rosa R / Espinosa-Portero R / Johansen HK / Molin S / Montoya G | |||||||||||||||||||||
| History |
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Structure visualization
| Supplemental images |
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Downloads & links
-EMDB archive
| Map data | emd_19547.map.gz | 136.6 MB | EMDB map data format | |
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| Header (meta data) | emd-19547-v30.xml emd-19547.xml | 72.3 KB 72.3 KB | Display Display | EMDB header |
| FSC (resolution estimation) | emd_19547_fsc.xml | 17.6 KB | Display | FSC data file |
| Images | emd_19547.png | 185.2 KB | ||
| Filedesc metadata | emd-19547.cif.gz | 13.6 KB | ||
| Others | emd_19547_half_map_1.map.gz emd_19547_half_map_2.map.gz | 138.9 MB 138.9 MB | ||
| Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-19547 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-19547 | HTTPS FTP |
-Validation report
| Summary document | emd_19547_validation.pdf.gz | 1.1 MB | Display | EMDB validaton report |
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| Full document | emd_19547_full_validation.pdf.gz | 1.1 MB | Display | |
| Data in XML | emd_19547_validation.xml.gz | 22.1 KB | Display | |
| Data in CIF | emd_19547_validation.cif.gz | 29.5 KB | Display | |
| Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-19547 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-19547 | HTTPS FTP |
-Related structure data
| Related structure data | ![]() 8rwgMC ![]() 19609 ![]() 19610 ![]() 19611 ![]() 19615 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_19547.map.gz / Format: CCP4 / Size: 149.9 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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| Annotation | PAO1 wild-type ribosome, R, reference map | ||||||||||||||||||||||||||||||||||||
| Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
| Voxel size | X=Y=Z: 0.832 Å | ||||||||||||||||||||||||||||||||||||
| Density |
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| Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
| Details | EMDB XML:
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-Supplemental data
-Half map: R half map 2
| File | emd_19547_half_map_1.map | ||||||||||||
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| Annotation | R half map 2 | ||||||||||||
| Projections & Slices |
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| Density Histograms |
-Half map: R half map 1
| File | emd_19547_half_map_2.map | ||||||||||||
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| Annotation | R half map 1 | ||||||||||||
| Projections & Slices |
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| Density Histograms |
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Sample components
+Entire : PAO1 wild-type ribosome
+Supramolecule #1: PAO1 wild-type ribosome
+Macromolecule #1: 50S ribosomal protein L27
+Macromolecule #2: 50S ribosomal protein L28
+Macromolecule #3: 50S ribosomal protein L29
+Macromolecule #4: 50S ribosomal protein L30
+Macromolecule #5: 50S ribosomal protein L32
+Macromolecule #6: Large ribosomal subunit protein bL33
+Macromolecule #7: 50S ribosomal protein L34
+Macromolecule #8: 50S ribosomal protein L35
+Macromolecule #9: 50S ribosomal protein L36
+Macromolecule #13: 50S ribosomal protein L2
+Macromolecule #14: 50S ribosomal protein L3
+Macromolecule #15: 50S ribosomal protein L4
+Macromolecule #16: 50S ribosomal protein L5
+Macromolecule #17: 50S ribosomal protein L6
+Macromolecule #18: 50S ribosomal protein L9
+Macromolecule #19: 50S ribosomal protein L13
+Macromolecule #20: 50S ribosomal protein L14
+Macromolecule #21: 50S ribosomal protein L15
+Macromolecule #22: 50S ribosomal protein L16
+Macromolecule #23: 50S ribosomal protein L17
+Macromolecule #24: 50S ribosomal protein L18
+Macromolecule #25: 50S ribosomal protein L19
+Macromolecule #26: 50S ribosomal protein L20
+Macromolecule #27: 50S ribosomal protein L21
+Macromolecule #28: Large ribosomal subunit protein uL22
+Macromolecule #29: 50S ribosomal protein L23
+Macromolecule #30: 50S ribosomal protein L24
+Macromolecule #31: 50S ribosomal protein L25
+Macromolecule #32: 30S ribosomal protein S2
+Macromolecule #33: 30S ribosomal protein S3
+Macromolecule #34: 30S ribosomal protein S4
+Macromolecule #35: 30S ribosomal protein S5
+Macromolecule #36: 30S ribosomal protein S6
+Macromolecule #37: 30S ribosomal protein S7
+Macromolecule #38: 30S ribosomal protein S8
+Macromolecule #39: 30S ribosomal protein S9
+Macromolecule #40: 30S ribosomal protein S10
+Macromolecule #41: 30S ribosomal protein S11
+Macromolecule #42: 30S ribosomal protein S12
+Macromolecule #43: 30S ribosomal protein S13
+Macromolecule #44: 30S ribosomal protein S14
+Macromolecule #45: 30S ribosomal protein S15
+Macromolecule #46: 30S ribosomal protein S16
+Macromolecule #47: 30S ribosomal protein S17
+Macromolecule #48: 30S ribosomal protein S18
+Macromolecule #49: 30S ribosomal protein S19
+Macromolecule #50: 30S ribosomal protein S20
+Macromolecule #51: 30S ribosomal protein S21
+Macromolecule #10: 23S ribosomal RNA
+Macromolecule #11: 16S ribosomal RNA
+Macromolecule #12: 5S ribosomal RNA
+Macromolecule #52: ZINC ION
+Macromolecule #53: MAGNESIUM ION
+Macromolecule #54: 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
| Concentration | 1 mg/mL | |||||||||||||||
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| Buffer | pH: 7.6 Component:
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| Vitrification | Cryogen name: NITROGEN / Chamber humidity: 100 % / Chamber temperature: 277 K / Instrument: FEI VITROBOT MARK IV |
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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: COUNTING / Number grids imaged: 1 / Number real images: 3773 / Average exposure time: 50.0 sec. / Average electron dose: 50.0 e/Å2 |
| Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
| Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 0.5 µm / Nominal magnification: 96000 |
| Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
| Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
Movie
Controller
About Yorodumi




Keywords
Pseudomonas aeruginosa PAO1 (bacteria)
Authors
Denmark, European Union, 6 items
Citation





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





































Processing
FIELD EMISSION GUN


