Equivalence class NR_4.0_76703.6 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Domain | 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 | 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 |
| 12 | 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 |
| 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 | 7N1P|1|Pt | Transfer RNA | tRNA, mRNA | Escherichia coli K-12 | Bacteria | RF00005 | Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation | Electron microscopy | 2.33 | 2021-07-14 |
| 17 | 7N2U|1|Pt | Transfer RNA | tRNA, mRNA | Escherichia coli K-12 | Bacteria | RF00005 | Elongating 70S ribosome complex in a hybrid-H1 pre-translocation (PRE-H1) conformation | Electron microscopy | 2.53 | 2021-07-14 |
| 18 | 7N30|1|Pt | Transfer RNA | tRNA, mRNA | Escherichia coli K-12 | Bacteria | RF00005 | Elongating 70S ribosome complex in a hybrid-H2* pre-translocation (PRE-H2*) conformation | Electron microscopy | 2.66 | 2021-07-14 |
| 19 | 7N31|1|Pt | Transfer RNA | tRNA, mRNA | Escherichia coli K-12 | Bacteria | RF00005 | Elongating 70S ribosome complex in a post-translocation (POST) conformation | Electron microscopy | 2.69 | 2021-07-14 |
| 20 | 7N2C|1|Pt | Transfer RNA | Chains: Pt, Chains: mR | Escherichia coli | Bacteria | RF00005 | Elongating 70S ribosome complex in a fusidic acid-stalled intermediate state of translocation bound to EF-G(GDP) (INT2) | Electron microscopy | 2.72 | 2021-07-14 |
| 21 | 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 |
| 22 | 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 |
| 23 | 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 |
| 24 | 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 |
| 25 | 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 |
Release history
| Release | 3.187 | 3.188 | 3.189 | 3.190 | 3.191 | 3.192 | 3.193 | 3.194 | 3.195 | 3.196 | 3.197 | 3.198 | 3.199 | 3.200 | 3.201 | 3.202 | 3.203 | 3.204 | 3.205 | 3.206 | 3.207 | 3.208 | 3.209 | 3.210 | 3.211 | 3.212 | 3.213 | 3.214 | 3.215 | 3.216 | 3.217 | 3.218 | 3.219 | 3.220 | 3.221 | 3.222 | 3.223 | 3.224 | 3.225 | 3.226 | 3.227 | 3.228 | 3.229 | 3.230 | 3.231 | 3.232 | 3.233 | 3.234 | 3.235 | 3.236 | 3.237 | 3.238 | 3.239 | 3.240 | 3.241 | 3.242 | 3.243 | 3.244 | 3.245 | 3.246 | 3.247 | 3.248 | 3.249 | 3.250 | 3.251 | 3.252 | 3.253 | 3.254 | 3.255 | 3.256 | 3.257 | 3.258 | 3.259 | 3.260 | 3.261 | 3.262 | 3.263 | 3.264 | 3.265 | 3.266 | 3.267 | 3.268 | 3.269 | 3.270 | 3.271 | 3.272 | 3.273 | 3.274 | 3.275 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2021-07-14 | 2021-07-21 | 2021-07-28 | 2021-08-04 | 2021-08-11 | 2021-08-18 | 2021-08-25 | 2021-09-01 | 2021-09-08 | 2021-09-15 | 2021-09-22 | 2021-09-29 | 2021-10-06 | 2021-10-13 | 2021-10-20 | 2021-10-27 | 2021-11-03 | 2021-11-10 | 2021-11-17 | 2021-11-24 | 2021-12-01 | 2021-12-08 | 2021-12-15 | 2021-12-22 | 2021-12-29 | 2022-01-05 | 2022-01-12 | 2022-01-19 | 2022-01-26 | 2022-02-02 | 2022-02-09 | 2022-02-16 | 2022-02-23 | 2022-03-02 | 2022-03-09 | 2022-03-16 | 2022-03-23 | 2022-03-30 | 2022-04-06 | 2022-04-13 | 2022-04-20 | 2022-04-27 | 2022-05-04 | 2022-05-11 | 2022-05-18 | 2022-05-25 | 2022-06-01 | 2022-06-08 | 2022-06-15 | 2022-06-22 | 2022-06-29 | 2022-07-06 | 2022-07-13 | 2022-07-20 | 2022-07-27 | 2022-08-03 | 2022-08-10 | 2022-08-17 | 2022-08-24 | 2022-08-31 | 2022-09-07 | 2022-09-14 | 2022-09-21 | 2022-09-28 | 2022-10-05 | 2022-10-12 | 2022-10-19 | 2022-10-26 | 2022-11-02 | 2022-11-09 | 2022-11-16 | 2022-11-23 | 2022-11-30 | 2022-12-07 | 2022-12-14 | 2022-12-21 | 2022-12-28 | 2023-01-04 | 2023-01-11 | 2023-01-18 | 2023-01-25 | 2023-02-01 | 2023-02-08 | 2023-02-15 | 2023-02-22 | 2023-03-01 | 2023-03-08 | 2023-03-15 | 2023-03-22 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_76703.6 | NR_4.0_76703.5 | 3.187 | (20) 5JTE|1|AW, 5E81|1|1K, 5EL6|1|1L, 5EL6|1|1K, 5IB8|1|1K, 5E7K|1|1L, 5EL5|1|1L, 5IB7|1|1L, 5E7K|1|1K, 7D6Z|1|4, 5EL5|1|1K, 5IB7|1|1K, 5UYQ|1|Y, 5EL4|1|1L, 5EL7|1|1L, 5UYP|1|Y, 5EL4|1|1K, 5EL7|1|1K, 5UYN|1|Y, 5E81|1|1L | (5) 7N30|1|Pt, 7N31|1|Pt, 7N2C|1|Pt, 7N1P|1|Pt, 7N2U|1|Pt | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_76703.6 | NR_4.0_76703.7 | 3.276 | (25) 5EL6|1|1K, 5IB7|1|1K, 5UYN|1|Y, 7N1P|1|Pt, 5E7K|1|1K, 7N31|1|Pt, 5EL4|1|1K, 5EL7|1|1L, 5JTE|1|AW, 7D6Z|1|4, 7N30|1|Pt, 5E81|1|1L, 5EL5|1|1L, 5EL7|1|1K, 5IB8|1|1K, 5UYQ|1|Y, 7N2U|1|Pt, 5E81|1|1K, 5EL5|1|1K, 5EL6|1|1L, 5IB7|1|1L, 5UYP|1|Y, 7N2C|1|Pt, 5E7K|1|1L, 5EL4|1|1L | (0) | (4) 8FON|1|XV, 8FON|1|QV, 8FOM|1|XV, 8FOM|1|QV |
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 | 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 |
| 2 | 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 |
| 3 | 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 |
| 4 | 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 |
| 5 | 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 |
| 6 | 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 |
| 7 | 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 |
| 8 | 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 |
| 9 | 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 |
| 10 | 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 |
| 11 | 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 |
| 12 | 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 |
| 13 | 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 |
| 14 | 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 |
| 15 | 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 |
| 16 | 5JTE|1|AW | Cryo-EM structure of an ErmBL-stalled ribosome in complex with A-, P-, and E-tRNA | ELECTRON MICROSCOPY | 3.6 | 66 |
| 17 | 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 |
| 18 | 7N1P|1|Pt | Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation | ELECTRON MICROSCOPY | 2.33 | 67 |
| 19 | 7N2U|1|Pt | Elongating 70S ribosome complex in a hybrid-H1 pre-translocation (PRE-H1) conformation | ELECTRON MICROSCOPY | 2.53 | 67 |
| 20 | 7N30|1|Pt | Elongating 70S ribosome complex in a hybrid-H2* pre-translocation (PRE-H2*) conformation | ELECTRON MICROSCOPY | 2.66 | 66 |
| 21 | 7N31|1|Pt | Elongating 70S ribosome complex in a post-translocation (POST) conformation | ELECTRON MICROSCOPY | 2.69 | 67 |
| 22 | 7N2C|1|Pt | Elongating 70S ribosome complex in a fusidic acid-stalled intermediate state of translocation bound to EF-G(GDP) (INT2) | ELECTRON MICROSCOPY | 2.72 | 67 |
| 23 | 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 |
| 24 | 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 |
| 25 | 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 |