Equivalence class NR_all_76703.5 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5E81|1|1K (rep) | Transfer RNA | tRNA-Lys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair | X-ray diffraction | 2.95 | 2016-01-27 |
| 2 | 5EL6|1|1L | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin | X-ray diffraction | 3.1 | 2016-01-27 |
| 3 | 5EL4|1|1K | Transfer RNA | tRNA-Lys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position | X-ray diffraction | 3.15 | 2016-01-27 |
| 4 | 5IB8|1|1K | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site | X-ray diffraction | 3.13 | 2016-05-25 |
| 5 | 5IB7|1|1K | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin | X-ray diffraction | 2.99 | 2016-05-25 |
| 6 | 5E7K|1|1K | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site | X-ray diffraction | 3.2 | 2016-01-27 |
| 7 | 5EL4|1|1L | Transfer RNA | tRNA-Lys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position | X-ray diffraction | 3.15 | 2016-01-27 |
| 8 | 5EL6|1|1K | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin | X-ray diffraction | 3.1 | 2016-01-27 |
| 9 | 5EL7|1|1K | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin | X-ray diffraction | 3.15 | 2016-01-27 |
| 10 | 5E81|1|1L | Transfer RNA | tRNA-Lys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair | X-ray diffraction | 2.95 | 2016-01-27 |
| 11 | 5E7K|1|1L | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site | X-ray diffraction | 3.2 | 2016-01-27 |
| 12 | 5IB7|1|1L | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin | X-ray diffraction | 2.99 | 2016-05-25 |
| 13 | 5EL7|1|1L | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin | X-ray diffraction | 3.15 | 2016-01-27 |
| 14 | 5EL5|1|1K | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position | X-ray diffraction | 3.15 | 2016-01-27 |
| 15 | 5EL5|1|1L | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position | X-ray diffraction | 3.15 | 2016-01-27 |
| 16 | 7D6Z|1|4 | Transfer RNA | A-site tRNA | Escherichia coli | Bacteria | RF00005 | Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase and trigger factor | Electron microscopy | 3.4 | 2021-04-07 |
| 17 | 5UYQ|1|Y | Transfer RNA | tRNALys, mRNA | Escherichia coli | Bacteria | RF00005 | 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, closed 30S (Structure III-nc) | Electron microscopy | 3.8 | 2017-06-07 |
| 18 | 5UYP|1|Y | Transfer RNA | tRNALys | Escherichia coli | Bacteria | RF00005 | 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open 30S (Structure II-nc) | Electron microscopy | 3.9 | 2017-06-07 |
| 19 | 5JTE|1|AW | Transfer RNA | A-site Lysine tRNA Lysine, mRNA | Escherichia coli | Bacteria | RF00005 | Cryo-EM structure of an ErmBL-stalled ribosome in complex with A-, P-, and E-tRNA | Electron microscopy | 3.6 | 2016-07-20 |
| 20 | 5UYN|1|Y | Transfer RNA | tRNALys | Escherichia coli | Bacteria | RF00005 | 70S ribosome bound with near-cognate ternary complex not base-paired to A site codon (Structure I-nc) | Electron microscopy | 4 | 2017-06-07 |
| 21 | 7D80|1|Z | Transfer RNA | A-site tRNA | Escherichia coli | Bacteria | RF00005 | Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase, trigger factor, and methionine aminopeptidase | Electron microscopy | 4.1 | 2021-04-07 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_all_76703.5 | NR_all_76703.4 | 3.173 | (19) 5EL5|1|1L, 5EL5|1|1K, 5EL4|1|1L, 5EL4|1|1K, 5E81|1|1L, 5E81|1|1K, 5UYQ|1|Y, 5E7K|1|1L, 5UYP|1|Y, 5E7K|1|1K, 5UYN|1|Y, 5JTE|1|AW, 5IB8|1|1K, 5IB7|1|1L, 5IB7|1|1K, 5EL7|1|1L, 5EL7|1|1K, 5EL6|1|1L, 5EL6|1|1K | (2) 7D6Z|1|4, 7D80|1|Z | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_all_76703.5 | NR_all_76703.6 | 3.187 | (21) 5EL6|1|1L, 5IB7|1|1K, 5JTE|1|AW, 7D6Z|1|4, 5E81|1|1L, 5EL5|1|1K, 5UYQ|1|Y, 5E81|1|1K, 5EL4|1|1L, 5EL6|1|1K, 5EL7|1|1L, 5IB8|1|1K, 5UYP|1|Y, 5E7K|1|1L, 7D80|1|Z, 5EL4|1|1K, 5EL5|1|1L, 5EL7|1|1K, 5IB7|1|1L, 5UYN|1|Y, 5E7K|1|1K | (0) | (5) 7N2U|1|Pt, 7N30|1|Pt, 7N31|1|Pt, 7N1P|1|Pt, 7N2C|1|Pt |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5
#S - ordering by similarity (same as in the heat map).| #S | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|
| 1 | 7D80|1|Z | Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase, trigger factor, and methionine aminopeptidase | ELECTRON MICROSCOPY | 4.1 | 66 |
| 2 | 7D6Z|1|4 | Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase and trigger factor | ELECTRON MICROSCOPY | 3.4 | 66 |
| 3 | 5JTE|1|AW | Cryo-EM structure of an ErmBL-stalled ribosome in complex with A-, P-, and E-tRNA | ELECTRON MICROSCOPY | 3.6 | 66 |
| 4 | 5EL5|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position | X-RAY DIFFRACTION | 3.15 | 64 |
| 5 | 5IB8|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site | X-RAY DIFFRACTION | 3.13 | 66 |
| 6 | 5IB7|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin | X-RAY DIFFRACTION | 2.99 | 67 |
| 7 | 5E81|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair | X-RAY DIFFRACTION | 2.95 | 67 |
| 8 | 5E7K|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site | X-RAY DIFFRACTION | 3.2 | 66 |
| 9 | 5EL4|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position | X-RAY DIFFRACTION | 3.15 | 64 |
| 10 | 5EL6|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin | X-RAY DIFFRACTION | 3.1 | 64 |
| 11 | 5EL7|1|1K | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin | X-RAY DIFFRACTION | 3.15 | 64 |
| 12 | 5EL5|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position | X-RAY DIFFRACTION | 3.15 | 71 |
| 13 | 5EL7|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin | X-RAY DIFFRACTION | 3.15 | 68 |
| 14 | 5EL4|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position | X-RAY DIFFRACTION | 3.15 | 72 |
| 15 | 5EL6|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin | X-RAY DIFFRACTION | 3.1 | 68 |
| 16 | 5E7K|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site | X-RAY DIFFRACTION | 3.2 | 68 |
| 17 | 5E81|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair | X-RAY DIFFRACTION | 2.95 | 64 |
| 18 | 5IB7|1|1L | Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin | X-RAY DIFFRACTION | 2.99 | 66 |
| 19 | 5UYN|1|Y | 70S ribosome bound with near-cognate ternary complex not base-paired to A site codon (Structure I-nc) | ELECTRON MICROSCOPY | 4 | 75 |
| 20 | 5UYP|1|Y | 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open 30S (Structure II-nc) | ELECTRON MICROSCOPY | 3.9 | 75 |
| 21 | 5UYQ|1|Y | 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, closed 30S (Structure III-nc) | ELECTRON MICROSCOPY | 3.8 | 75 |