Equivalence class NR_all_89292.4 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 4WQ1|1|3K (rep) | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-ray diffraction | 3.1 | 2015-06-10 |
| 2 | 4WU1|1|3L | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-ray diffraction | 3.2 | 2015-06-10 |
| 3 | 4WQ1|1|1K | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-ray diffraction | 3.1 | 2015-06-10 |
| 4 | 4WU1|1|3K | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-ray diffraction | 3.2 | 2015-06-10 |
| 5 | 4V8D|1|CD | TRNA-TYR | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||||
| 6 | 4WQ1|1|3L | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-ray diffraction | 3.1 | 2015-06-10 |
| 7 | 4WR6|1|3K | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-ray diffraction | 3.05 | 2015-06-10 |
| 8 | 4WRA|1|3K | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-ray diffraction | 3.05 | 2015-06-10 |
| 9 | 4WU1|1|2L | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-ray diffraction | 3.2 | 2015-06-10 |
| 10 | 4WR6|1|3L | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-ray diffraction | 3.05 | 2015-06-10 |
| 11 | 4WR6|1|1K | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-ray diffraction | 3.05 | 2015-06-10 |
| 12 | 4V8D|1|AD | TRNA-TYR | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||||
| 13 | 4WU1|1|2K | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-ray diffraction | 3.2 | 2015-06-10 |
| 14 | 4WRA|1|1K | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-ray diffraction | 3.05 | 2015-06-10 |
| 15 | 4WRA|1|3L | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-ray diffraction | 3.05 | 2015-06-10 |
| 16 | 4V8D|1|AB | MRNA, TRNA-TYR | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||||
| 17 | 4WQ1|1|1L | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-ray diffraction | 3.1 | 2015-06-10 |
| 18 | 4V8E|1|BD | TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 19 | 4WR6|1|1L | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-ray diffraction | 3.05 | 2015-06-10 |
| 20 | 4V8E|1|DD | TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 21 | 4V8F|1|CD | TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 22 | 4V8F|1|BD | TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 23 | 4WRA|1|1L | Transfer RNA | mRNA, tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-ray diffraction | 3.05 | 2015-06-10 |
| 24 | 4V8D|1|CB | MRNA, TRNA-TYR | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||||
| 25 | 4V8E|1|BB | MRNA, TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 26 | 4V8E|1|DB | MRNA, TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 27 | 4V8F|1|BB | MRNA, TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 28 | 6N1D|1|BATN | Transfer RNA | A tRNA | Escherichia coli | Bacteria | RF00005 | X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State | X-ray diffraction | 3.2 | 2019-04-03 |
| 29 | 4V8F|1|CB | MRNA, TRNA-TYR | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||||
| 30 | 6K0B|1|V | Transfer RNA | tRNA | Escherichia coli | Bacteria | RF00005 | cryo-EM structure of archaeal Ribonuclease P with mature tRNA | Electron microscopy | 4.3 | 2019-06-19 |
| 31 | 6K0B|1|U | Transfer RNA | tRNA | Escherichia coli | Bacteria | RF00005 | cryo-EM structure of archaeal Ribonuclease P with mature tRNA | Electron microscopy | 4.3 | 2019-06-19 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_89292.4 | NR_all_89292.3 | 3.79 | (29) 4V8D|1|AB, 4V8D|1|AD, 4V8D|1|CB, 4V8D|1|CD, 4V8E|1|BB, 4V8E|1|BD, 4V8E|1|DB, 4V8E|1|DD, 4V8F|1|BB, 4V8F|1|BD, 4V8F|1|CB, 4V8F|1|CD, 4WQ1|1|1K, 4WQ1|1|1L, 4WQ1|1|3K, 4WQ1|1|3L, 4WR6|1|1K, 4WR6|1|1L, 4WR6|1|3K, 4WR6|1|3L, 4WRA|1|1K, 4WRA|1|1L, 4WRA|1|3K, 4WRA|1|3L, 4WU1|1|2K, 4WU1|1|2L, 4WU1|1|3K, 4WU1|1|3L, 6N1D|1|BATN | (2) 6K0B|1|U, 6K0B|1|V | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_all_89292.4 | NR_all_17762.1 | 3.98 | (2) 6K0B|1|U, 6K0B|1|V | (29) 4V8D|1|AB, 4V8D|1|AD, 4V8D|1|CB, 4V8D|1|CD, 4V8E|1|BB, 4V8E|1|BD, 4V8E|1|DB, 4V8E|1|DD, 4V8F|1|BB, 4V8F|1|BD, 4V8F|1|CB, 4V8F|1|CD, 4WQ1|1|1K, 4WQ1|1|1L, 4WQ1|1|3K, 4WQ1|1|3L, 4WR6|1|1K, 4WR6|1|1L, 4WR6|1|3K, 4WR6|1|3L, 4WRA|1|1K, 4WRA|1|1L, 4WRA|1|3K, 4WRA|1|3L, 4WU1|1|2K, 4WU1|1|2L, 4WU1|1|3K, 4WU1|1|3L, 6N1D|1|BATN | (0) |
| NR_all_89292.4 | NR_all_89292.5 | 3.98 | (29) 4V8D|1|AB, 4V8D|1|AD, 4V8D|1|CB, 4V8D|1|CD, 4V8E|1|BB, 4V8E|1|BD, 4V8E|1|DB, 4V8E|1|DD, 4V8F|1|BB, 4V8F|1|BD, 4V8F|1|CB, 4V8F|1|CD, 4WQ1|1|1K, 4WQ1|1|1L, 4WQ1|1|3K, 4WQ1|1|3L, 4WR6|1|1K, 4WR6|1|1L, 4WR6|1|3K, 4WR6|1|3L, 4WRA|1|1K, 4WRA|1|1L, 4WRA|1|3K, 4WRA|1|3L, 4WU1|1|2K, 4WU1|1|2L, 4WU1|1|3K, 4WU1|1|3L, 6N1D|1|BATN | (2) 6K0B|1|U, 6K0B|1|V | (0) |
Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|---|
| 1 | 4WU1|1|2L | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-RAY DIFFRACTION | 3.2 | 71 | |
| 2 | 4WU1|1|2K | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-RAY DIFFRACTION | 3.2 | 75 | |
| 3 | 4WRA|1|1L | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-RAY DIFFRACTION | 3.05 | 84 | |
| 4 | 4WR6|1|1L | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.05 | 85 | |
| 5 | 4WQ1|1|1L | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.1 | 67 | |
| 6 | 4V8F|1|CB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 7 | 4V8D|1|CB | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | |
| 8 | 4V8E|1|DB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 9 | 4V8E|1|BB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 10 | 4V8D|1|AB | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | |
| 11 | 4V8F|1|BB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 12 | 4WRA|1|1K | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-RAY DIFFRACTION | 3.05 | 80 | |
| 13 | 4WR6|1|1K | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.05 | 78 | |
| 14 | 4WQ1|1|1K | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.1 | 78 | |
| 15 | 6N1D|1|BATN | X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State | X-RAY DIFFRACTION | 3.2 | 80 | |
| 16 | 4WRA|1|3K | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-RAY DIFFRACTION | 3.05 | 84 | |
| 17 | 4WR6|1|3K | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.05 | 78 | |
| 18 | 4WU1|1|3K | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-RAY DIFFRACTION | 3.2 | 78 | |
| 19 | 4WQ1|1|3K | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.1 | 67 | |
| 20 | 4V8D|1|AD | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | |
| 21 | 4V8F|1|BD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 22 | 4V8E|1|BD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 23 | 4V8E|1|DD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 24 | 4V8F|1|CD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | |
| 25 | 4V8D|1|CD | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | |
| 26 | 4WQ1|1|3L | Complex of 70S ribosome with tRNA-Tyr and mRNA with C-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.1 | 68 | |
| 27 | 4WU1|1|3L | Complex of 70S ribosome with tRNA-Tyr and mRNA with G-U mismatch in the second position in the P-site | X-RAY DIFFRACTION | 3.2 | 78 | |
| 28 | 4WR6|1|3L | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site. | X-RAY DIFFRACTION | 3.05 | 85 | |
| 29 | 4WRA|1|3L | Complex of 70S ribosome with tRNA-Tyr and mRNA with A-A mismatch in the first position in the A-site and with antibiotic paromomycin. | X-RAY DIFFRACTION | 3.05 | 83 | |
| 30 | 6K0B|1|V | cryo-EM structure of archaeal Ribonuclease P with mature tRNA | ELECTRON MICROSCOPY | 4.3 | 83 | |
| 31 | 6K0B|1|U | cryo-EM structure of archaeal Ribonuclease P with mature tRNA | ELECTRON MICROSCOPY | 4.3 | 83 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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