Equivalence class NR_3.5_89292.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 4V8E|1|BB (rep) | Transfer RNA | TRNA-TYR, MRNA | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 2 | 4V8D|1|AD | Transfer RNA | TRNA-TYR | RF00005 | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||
| 3 | 4V8E|1|BD | Transfer RNA | TRNA-TYR | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 4 | 4V8E|1|DD | Transfer RNA | TRNA-TYR | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 5 | 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 |
| 6 | 4V8D|1|AB | Transfer RNA | TRNA-TYR, MRNA | RF00005 | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||
| 7 | 4V8E|1|DB | Transfer RNA | TRNA-TYR, MRNA | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 8 | 4V8D|1|CD | Transfer RNA | TRNA-TYR | RF00005 | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||
| 9 | 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 |
| 10 | 4WQ1|1|3K | 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 |
| 11 | 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 |
| 12 | 4WZD|1|3K | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-ray diffraction | 3.1 | 2015-06-10 |
| 13 | 4WZD|1|3L | Transfer RNA | tRNA-Tyr | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-ray diffraction | 3.1 | 2015-06-10 |
| 14 | 4V8F|1|BD | Transfer RNA | TRNA-TYR | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 15 | 4V8F|1|CD | Transfer RNA | TRNA-TYR | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 16 | 4WZD|1|2K | Transfer RNA | tRNA-Tyr, mRNA | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-ray diffraction | 3.1 | 2015-06-10 |
| 17 | 4WU1|1|2K | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 18 | 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 |
| 19 | 4WU1|1|2L | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 20 | 4V8F|1|BB | Transfer RNA | TRNA-TYR, MRNA | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 21 | 4V8F|1|CB | Transfer RNA | TRNA-TYR, MRNA | RF00005 | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-ray diffraction | 3.3 | 2014-07-09 | ||
| 22 | 4V8D|1|CB | Transfer RNA | TRNA-TYR, MRNA | RF00005 | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-ray diffraction | 3 | 2014-07-09 | ||
| 23 | 4WQ1|1|1K | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 24 | 4WRA|1|1K | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 25 | 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 |
| 26 | 4WZD|1|2L | Transfer RNA | tRNA-Tyr, mRNA | Escherichia coli | Bacteria | RF00005 | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-ray diffraction | 3.1 | 2015-06-10 |
| 27 | 4WQ1|1|1L | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 28 | 4WR6|1|1K | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 29 | 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 |
| 30 | 4WR6|1|1L | Transfer RNA | tRNA-Tyr, mRNA | 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 |
| 31 | 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 |
| 32 | 4WRA|1|1L | Transfer RNA | tRNA-Tyr, mRNA | 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 |
Release history
| Release | 2.27 | 2.28 | 2.29 | 2.30 | 2.31 | 2.32 | 2.33 | 2.34 | 2.35 | 2.36 | 2.37 | 2.38 | 2.39 | 2.40 | 2.41 | 2.42 | 2.43 | 2.44 | 2.45 | 2.46 | 2.47 | 2.48 | 2.49 | 2.50 | 2.51 | 2.52 | 2.53 | 2.54 | 2.55 | 2.56 | 2.57 | 2.58 | 2.59 | 2.60 | 2.61 | 2.62 | 2.63 | 2.64 | 2.65 | 2.66 | 2.67 | 2.68 | 2.69 | 2.70 | 2.71 | 2.72 | 2.73 | 2.74 | 2.75 | 2.76 | 2.77 | 2.78 | 2.79 | 2.80 | 2.81 | 2.82 | 2.83 | 2.84 | 2.85 | 2.86 | 2.87 | 2.88 | 2.89 | 2.90 | 2.91 | 2.92 | 2.93 | 2.94 | 2.95 | 2.96 | 2.97 | 2.98 | 2.99 | 2.100 | 2.101 | 2.102 | 2.103 | 2.104 | 2.105 | 2.106 | 2.107 | 2.108 | 2.109 | 2.110 | 2.111 | 2.112 | 2.113 | 2.114 | 2.115 | 2.116 | 2.117 | 2.118 | 2.119 | 2.120 | 2.121 | 2.122 | 2.123 | 2.124 | 2.125 | 2.126 | 2.127 | 2.128 | 2.129 | 2.130 | 2.131 | 2.132 | 2.133 | 2.134 | 2.135 | 2.136 | 2.137 | 2.138 | 2.139 | 2.140 | 2.141 | 2.142 | 2.143 | 2.144 | 2.145 | 2.146 | 2.147 | 2.148 | 2.149 | 2.150 | 2.151 | 2.152 | 2.153 | 2.154 | 2.155 | 2.156 | 2.157 | 2.158 |
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| Date | 2015-06-12 | 2015-06-19 | 2015-06-26 | 2015-07-03 | 2015-07-10 | 2015-07-17 | 2015-07-24 | 2015-07-31 | 2015-08-07 | 2015-08-14 | 2015-08-21 | 2015-08-28 | 2015-09-04 | 2015-09-11 | 2015-09-18 | 2015-09-25 | 2015-10-02 | 2015-10-09 | 2015-10-16 | 2015-10-23 | 2015-10-30 | 2015-11-06 | 2015-11-13 | 2015-11-20 | 2015-11-27 | 2015-12-04 | 2015-12-11 | 2015-12-18 | 2015-12-25 | 2016-01-01 | 2016-01-08 | 2016-01-15 | 2016-01-22 | 2016-01-29 | 2016-02-05 | 2016-02-12 | 2016-02-19 | 2016-02-26 | 2016-03-04 | 2016-03-11 | 2016-03-18 | 2016-03-25 | 2016-04-01 | 2016-04-08 | 2016-04-15 | 2016-04-22 | 2016-04-29 | 2016-05-06 | 2016-05-13 | 2016-05-20 | 2016-05-27 | 2016-06-03 | 2016-06-10 | 2016-06-17 | 2016-06-24 | 2016-07-01 | 2016-07-08 | 2016-07-15 | 2016-07-22 | 2016-07-29 | 2016-08-05 | 2016-08-12 | 2016-08-19 | 2016-08-26 | 2016-09-02 | 2016-09-09 | 2016-09-16 | 2016-09-23 | 2016-09-30 | 2016-10-07 | 2016-10-14 | 2016-10-21 | 2016-10-28 | 2016-11-04 | 2016-11-11 | 2016-11-18 | 2016-11-25 | 2016-12-02 | 2016-12-09 | 2016-12-16 | 2016-12-23 | 2016-12-30 | 2017-01-06 | 2017-01-13 | 2017-01-20 | 2017-01-27 | 2017-02-03 | 2017-02-10 | 2017-02-17 | 2017-02-24 | 2017-03-03 | 2017-03-10 | 2017-03-17 | 2017-03-24 | 2017-03-31 | 2017-04-11 | 2017-04-15 | 2017-04-26 | 2017-04-29 | 2017-05-09 | 2017-05-15 | 2017-05-20 | 2017-05-27 | 2017-06-07 | 2017-06-11 | 2017-06-21 | 2017-06-24 | 2017-06-28 | 2017-07-04 | 2017-07-10 | 2017-07-15 | 2017-07-26 | 2017-07-31 | 2017-08-05 | 2017-08-12 | 2017-08-19 | 2017-08-26 | 2017-09-03 | 2017-09-09 | 2017-09-16 | 2017-09-23 | 2017-09-30 | 2017-10-07 | 2017-10-14 | 2017-10-21 | 2017-10-28 | 2017-11-03 | 2017-11-10 | 2017-11-17 | 2017-11-24 | 2017-12-01 | 2017-12-08 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_89292.1 | NR_all_95445.1 | 2.27 | (12) 4V8F|1|CD, 4V8D|1|CD, 4V8F|1|BB, 4V8D|1|AB, 4V8E|1|BD, 4V8F|1|CB, 4V8D|1|AD, 4V8E|1|DB, 4V8F|1|BD, 4V8E|1|BB, 4V8E|1|DD, 4V8D|1|CB | (20) 4WU1|1|2K, 4WRA|1|3K, 4WR6|1|3K, 4WRA|1|1K, 4WQ1|1|3K, 4WQ1|1|1K, 4WZD|1|3K, 4WU1|1|3K, 4WRA|1|3L, 4WRA|1|1L, 4WR6|1|1L, 4WQ1|1|1L, 4WZD|1|3L, 4WZD|1|2L, 4WU1|1|2L, 4WR6|1|1K, 4WZD|1|2K, 4WR6|1|3L, 4WQ1|1|3L, 4WU1|1|3L | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_89292.1 | NR_3.5_89292.2 | 3.0 | (28) 4WR6|1|1K, 4WRA|1|1K, 4WU1|1|2K, 4V8D|1|AB, 4V8E|1|BB, 4V8F|1|BB, 4WQ1|1|1K, 4WQ1|1|3L, 4WR6|1|3L, 4WRA|1|3L, 4WU1|1|3L, 4V8D|1|CD, 4V8E|1|DD, 4V8F|1|CD, 4WR6|1|1L, 4WRA|1|1L, 4WU1|1|2L, 4V8D|1|AD, 4V8E|1|BD, 4V8F|1|BD, 4WQ1|1|1L, 4WR6|1|3K, 4WRA|1|3K, 4WU1|1|3K, 4V8D|1|CB, 4V8E|1|DB, 4V8F|1|CB, 4WQ1|1|3K | (4) 4WZD|1|3L, 4WZD|1|2K, 4WZD|1|2L, 4WZD|1|3K | (0) |
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 | 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 |
| 2 | 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 |
| 3 | 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 |
| 4 | 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 |
| 5 | 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 |
| 6 | 4WZD|1|3K | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 78 |
| 7 | 4V8D|1|AD | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 |
| 8 | 4V8F|1|BD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 |
| 9 | 4V8E|1|BD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 |
| 10 | 4V8E|1|DD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 |
| 11 | 4V8F|1|CD | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 |
| 12 | 4V8D|1|CD | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 |
| 13 | 4WZD|1|3L | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 78 |
| 14 | 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 |
| 15 | 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 |
| 16 | 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 |
| 17 | 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 |
| 18 | 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 |
| 19 | 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 |
| 20 | 4V8F|1|BB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 |
| 21 | 4V8D|1|AB | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 |
| 22 | 4V8E|1|BB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 |
| 23 | 4V8E|1|DB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 |
| 24 | 4V8D|1|CB | Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 |
| 25 | 4V8F|1|CB | Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 |
| 26 | 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 |
| 27 | 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 |
| 28 | 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 |
| 29 | 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 |
| 30 | 4WZD|1|2K | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 75 |
| 31 | 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 |
| 32 | 4WZD|1|2L | Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 71 |