+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-16334 | |||||||||
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Title | Cryo-EM structure of a Staphylococus aureus 30S-RbfA complex | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Ribosome / RbfA / 30S subunit maturation / cryo-EM / ribosome biogenesis / translation / Staphylococcus aureus | |||||||||
Function / homology | Function and homology information ribosomal small subunit binding / maturation of SSU-rRNA / ribosomal small subunit biogenesis / small ribosomal subunit rRNA binding / ribosomal small subunit assembly / cytosolic small ribosomal subunit / ribosome biogenesis / small ribosomal subunit / tRNA binding / rRNA binding ...ribosomal small subunit binding / maturation of SSU-rRNA / ribosomal small subunit biogenesis / small ribosomal subunit rRNA binding / ribosomal small subunit assembly / cytosolic small ribosomal subunit / ribosome biogenesis / small ribosomal subunit / tRNA binding / rRNA binding / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / mRNA binding / RNA binding / zinc ion binding / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | Staphylococcus aureus subsp. aureus NCTC 8325 (bacteria) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.89 Å | |||||||||
Authors | Bikmullin AG / Fatkhullin B / Stetsenko A / Guskov A / Yusupov M | |||||||||
Funding support | Russian Federation, 1 items
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Citation | Journal: To Be Published Title: Structural characteristic of RbfA from S. aureus Authors: Bikmullin AG / Fatkhullin B / Nurullina L / Garaeva N / Klochkova E / Guskov A / Stetsenko A / Khusainov I / Golubev A / Gabdulkhakov A / Trachtman N / Blokhin D / Validov S / Usachev K / Yusupov M | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_16334.map.gz | 97.3 MB | EMDB map data format | |
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Header (meta data) | emd-16334-v30.xml emd-16334.xml | 38.4 KB 38.4 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_16334_fsc.xml | 12.2 KB | Display | FSC data file |
Images | emd_16334.png | 164.1 KB | ||
Filedesc metadata | emd-16334.cif.gz | 8.9 KB | ||
Others | emd_16334_half_map_1.map.gz emd_16334_half_map_2.map.gz | 179.2 MB 179.2 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-16334 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-16334 | HTTPS FTP |
-Related structure data
Related structure data | 8byvMC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_16334.map.gz / Format: CCP4 / Size: 193.2 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: 1.022 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_16334_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_16334_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
+Entire : 30S small ribosomal subunit with ribosome binding factor A
+Supramolecule #1: 30S small ribosomal subunit with ribosome binding factor A
+Supramolecule #2: 30S Small ribosomal subunit
+Supramolecule #3: Ribosome-binding factor A
+Macromolecule #1: 16S ribosomal RNA
+Macromolecule #2: 30S ribosomal protein S2
+Macromolecule #3: 30S ribosomal protein S3
+Macromolecule #4: 30S ribosomal protein S4
+Macromolecule #5: 30S ribosomal protein S5
+Macromolecule #6: 30S ribosomal protein S6
+Macromolecule #7: 30S ribosomal protein S7
+Macromolecule #8: 30S ribosomal protein S8
+Macromolecule #9: 30S ribosomal protein S9
+Macromolecule #10: 30S ribosomal protein S10
+Macromolecule #11: 30S ribosomal protein S11
+Macromolecule #12: 30S ribosomal protein S12
+Macromolecule #13: 30S ribosomal protein S13
+Macromolecule #14: 30S ribosomal protein S14 type Z
+Macromolecule #15: 30S ribosomal protein S15
+Macromolecule #16: 30S ribosomal protein S16
+Macromolecule #17: 30S ribosomal protein S17
+Macromolecule #18: 30S ribosomal protein S18
+Macromolecule #19: 30S ribosomal protein S19
+Macromolecule #20: 30S ribosomal protein S20
+Macromolecule #21: Ribosome-binding factor A
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.5 |
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Grid | Model: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 300 |
Vitrification | Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV |
-Electron microscopy
Microscope | FEI TALOS ARCTICA |
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Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.5 µm |
Image recording | Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 53.3 e/Å2 |
Experimental equipment | Model: Talos Arctica / Image courtesy: FEI Company |