Equivalence class NR_4.0_24167.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. 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 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_24167.1 | NR_all_61989.1 | 3.0 | (12) 4V8D|1|CB, 4V8E|1|DD, 4V8E|1|BB, 4V8F|1|BD, 4V8D|1|AD, 4V8E|1|DB, 4V8F|1|CB, 4V8E|1|BD, 4V8D|1|AB, 4V8F|1|BB, 4V8D|1|CD, 4V8F|1|CD | (20) 4WZD|1|2K, 4WU1|1|2K, 4WRA|1|1K, 4WR6|1|3K, 4WR6|1|1K, 4WQ1|1|1K, 4WZD|1|3K, 4WRA|1|3L, 4WR6|1|3L, 4WR6|1|1L, 4WQ1|1|3L, 4WZD|1|3L, 4WZD|1|2L, 4WU1|1|3L, 4WRA|1|3K, 4WQ1|1|3K, 4WU1|1|3K, 4WRA|1|1L, 4WQ1|1|1L, 4WU1|1|2L | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_24167.1 | NR_4.0_02239.1 | 6.0 | (12) 4WZD|1|2K, 4V8E|1|DD, 4WR6|1|1K, 4WZD|1|2L, 4V8E|1|BB, 4WR6|1|1L, 4WZD|1|3K, 4WR6|1|3K, 4V8E|1|BD, 4WZD|1|3L, 4WR6|1|3L, 4V8E|1|DB | (20) 4V8D|1|AB, 4V8F|1|BB, 4WU1|1|2K, 4WRA|1|1K, 4WU1|1|3L, 4WRA|1|3L, 4WQ1|1|1K, 4WQ1|1|3L, 4WRA|1|1L, 4WU1|1|2L, 4WQ1|1|1L, 4V8F|1|BD, 4V8D|1|AD, 4V8D|1|CB, 4V8F|1|CB, 4WU1|1|3K, 4WRA|1|3K, 4WQ1|1|3K, 4V8F|1|CD, 4V8D|1|CD | (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 | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 4WR6|1|3L | Title: 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 | ||
| 2 | 4WRA|1|3L | Title: 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 | ||
| 3 | 4WQ1|1|3L | Title: 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 | ||
| 4 | 4WU1|1|3L | Title: 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 | ||
| 5 | 4WZD|1|3L | Title: Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 78 | ||
| 6 | 4V8D|1|CD | Title: Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | ||
| 7 | 4V8F|1|CD | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 8 | 4V8E|1|DD | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 9 | 4V8E|1|BD | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 10 | 4V8F|1|BD | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 11 | 4V8D|1|AD | Title: Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | ||
| 12 | 4WZD|1|3K | Title: Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 78 | ||
| 13 | 4WU1|1|3K | Title: 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 | ||
| 14 | 4WQ1|1|3K | Title: 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 | ||
| 15 | 4WR6|1|3K | Title: 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 | ||
| 16 | 4WRA|1|3K | Title: 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 | 4WRA|1|1K | Title: 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 | ||
| 18 | 4WR6|1|1K | Title: 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 | ||
| 19 | 4WRA|1|1L | Title: 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 | ||
| 20 | 4WR6|1|1L | Title: 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 | ||
| 21 | 4WQ1|1|1L | Title: 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 | ||
| 22 | 4V8D|1|AB | Title: Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | ||
| 23 | 4V8F|1|BB | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 24 | 4V8E|1|BB | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 25 | 4V8E|1|DB | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 26 | 4V8F|1|CB | Title: Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). | X-RAY DIFFRACTION | 3.3 | 84 | ||
| 27 | 4V8D|1|CB | Title: Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). | X-RAY DIFFRACTION | 3 | 84 | ||
| 28 | 4WQ1|1|1K | Title: 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 | 4WZD|1|2K | Title: Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 75 | ||
| 30 | 4WU1|1|2K | Title: 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 | ||
| 31 | 4WZD|1|2L | Title: Complex of 70S ribosome with cognate tRNA-Tyr in the P-site | X-RAY DIFFRACTION | 3.1 | 71 | ||
| 32 | 4WU1|1|2L | Title: 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 |
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