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- EMDB-26634: Pseudomonas aeruginosa 70S ribosome initiation complex bound to I... -
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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2-GDPCP (structure II-A) | |||||||||
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![]() | Initiation Factor 2 / 70S ribosome / cryo-EM / translation initiation / initiator tRNA / conformational changes / RIBOSOME | |||||||||
Function / homology | ![]() translation initiation factor activity / translational initiation / large ribosomal subunit / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding ...translation initiation factor activity / translational initiation / large ribosomal subunit / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / transferase activity / 5S rRNA binding / large ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / cytosolic large ribosomal subunit / cytoplasmic translation / tRNA binding / rRNA binding / negative regulation of translation / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / GTPase activity / mRNA binding / GTP binding / RNA binding / metal ion binding / cytoplasm / cytosol Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.7 Å | |||||||||
![]() | Basu RS / Sherman MB / Gagnon MG | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Compact IF2 allows initiator tRNA accommodation into the P site and gates the ribosome to elongation Authors: Basu RS / Sherman MB / Gagnon MG | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 256.7 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 85.2 KB 85.2 KB | Display Display | ![]() |
Images | ![]() | 250 KB | ||
Masks | ![]() | 512 MB | ![]() | |
Filedesc metadata | ![]() | 15.9 KB | ||
Others | ![]() ![]() ![]() | 387.7 MB 475.8 MB 475.8 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 19.2 KB | Display | |
Data in CIF | ![]() | 22.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7unvMC ![]() 7unqC ![]() 7unrC ![]() 7untC ![]() 7unuC ![]() 7unwC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
EM raw data | ![]() Data size: 1.7 TB Data #1: Unaligned multiframe micrographs of the Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2 collected on Gatan K3 in Super Resolution [micrographs - multiframe]) |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Voxel size | X=Y=Z: 0.85 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Additional map: Pseudomonas aeruginosa 70S ribosome initiation complex bound to...
File | emd_26634_additional_1.map | ||||||||||||
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Annotation | Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2-GDPCP (structure II-A). Sharpened map. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Pseudomonas aeruginosa 70S ribosome initiation complex bound to...
File | emd_26634_half_map_1.map | ||||||||||||
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Annotation | Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2-GDPCP (structure II-A). Half-map. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Pseudomonas aeruginosa 70S ribosome initiation complex bound to...
File | emd_26634_half_map_2.map | ||||||||||||
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Annotation | Pseudomonas aeruginosa 70S ribosome initiation complex bound to IF2-GDPCP (structure II-A). Half-map. | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
+Entire : Pseudomonas aeruginosa 70S ribosome initiation complex bound to I...
+Supramolecule #1: Pseudomonas aeruginosa 70S ribosome initiation complex bound to I...
+Macromolecule #1: 16S Ribosomal RNA
+Macromolecule #22: P-site initiator tRNA
+Macromolecule #23: mRNA
+Macromolecule #25: 23S Ribosomal RNA
+Macromolecule #26: 5S 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
+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: 30S ribosomal protein S21
+Macromolecule #24: Translation initiation factor IF-2
+Macromolecule #27: 50S ribosomal protein L2
+Macromolecule #28: 50S ribosomal protein L3
+Macromolecule #29: 50S ribosomal protein L4
+Macromolecule #30: 50S ribosomal protein L5
+Macromolecule #31: 50S ribosomal protein L6
+Macromolecule #32: 50S ribosomal protein L9
+Macromolecule #33: 50S ribosomal protein L10
+Macromolecule #34: 50S ribosomal protein L11
+Macromolecule #35: 50S ribosomal protein L13
+Macromolecule #36: 50S ribosomal protein L14
+Macromolecule #37: 50S ribosomal protein L15
+Macromolecule #38: 50S ribosomal protein L16
+Macromolecule #39: 50S ribosomal protein L17
+Macromolecule #40: 50S ribosomal protein L18
+Macromolecule #41: 50S ribosomal protein L19
+Macromolecule #42: 50S ribosomal protein L20
+Macromolecule #43: 50S ribosomal protein L21
+Macromolecule #44: 50S ribosomal protein L22
+Macromolecule #45: 50S ribosomal protein L23
+Macromolecule #46: 50S ribosomal protein L24
+Macromolecule #47: 50S ribosomal protein L25
+Macromolecule #48: 50S ribosomal protein L27
+Macromolecule #49: 50S ribosomal protein L28
+Macromolecule #50: 50S ribosomal protein L29
+Macromolecule #51: 50S ribosomal protein L30
+Macromolecule #52: 50S ribosomal protein L31
+Macromolecule #53: 50S ribosomal protein L32
+Macromolecule #54: 50S ribosomal protein L33
+Macromolecule #55: 50S ribosomal protein L34
+Macromolecule #56: 50S ribosomal protein L35
+Macromolecule #57: 50S ribosomal protein L36
+Macromolecule #58: MAGNESIUM ION
+Macromolecule #59: N-FORMYLMETHIONINE
+Macromolecule #60: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
+Macromolecule #61: ZINC ION
+Macromolecule #62: water
-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: 7.6 |
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Grid | Model: Quantifoil R2/1 / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE / Chamber humidity: 85 % / Chamber temperature: 295 K / Instrument: LEICA EM GP |
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Electron microscopy
Microscope | TFS KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number grids imaged: 1 / Number real images: 8056 / Average exposure time: 1.0 sec. / Average electron dose: 31.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.1 µm / Nominal defocus min: 0.2 µm / Nominal magnification: 105000 |
Sample stage | Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Initial model |
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Refinement | Space: REAL / Protocol: RIGID BODY FIT | ||||||
Output model | ![]() PDB-7unv: |