Equivalence class NR_3.5_20721.8 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5E81|1|2K (rep) | Transfer RNA | tRNA-fMet, mRNA | Thermus thermophilus | 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 | 5J8B|1|x | Transfer RNA | P-site tRNA, mRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal structure of Elongation Factor 4 (EF-4/LepA) in complex with GDPCP bound to the Thermus thermophilus 70S ribosome | X-ray diffraction | 2.6 | 2016-05-25 |
| 3 | 4V95|1|AV | Transfer RNA | P-site fMet-tRNA, mRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal structure of YAEJ bound to the 70S ribosome | X-ray diffraction | 3.2 | 2014-07-09 |
| 4 | 4V7J|1|Av | Transfer RNA | RNA (77-MER), RNA (5'-R(*GP*GP*CP*AP*AP*GP*GP*AP*GP*GP*UP*A*AP*AP*AP*AP*UP*GP*(OMU)P*(A2M)P*(OMG)P*AP*AP*AP*A)-3') | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-ray diffraction | 3.3 | 2014-07-09 |
| 5 | 4V9B|1|AC | Transfer RNA | TRNA-FMET, MRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tigecycline. | X-ray diffraction | 3.1 | 2014-07-09 |
| 6 | 4V7J|1|Bv | Transfer RNA | RNA (77-MER), RNA (5'-R(*GP*GP*CP*AP*AP*GP*GP*AP*GP*GP*UP*A*AP*AP*AP*AP*UP*GP*(OMU)P*(A2M)P*(OMG)P*AP*AP*AP*A)-3') | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-ray diffraction | 3.3 | 2014-07-09 |
| 7 | 5E81|1|2L | Transfer RNA | tRNA-fMet, mRNA | Thermus thermophilus | 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 |
| 8 | 4V9B|1|CC | Transfer RNA | TRNA-FMET, MRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tigecycline. | X-ray diffraction | 3.1 | 2014-07-09 |
| 9 | 4V95|1|CV | Transfer RNA | P-site fMet-tRNA, mRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal structure of YAEJ bound to the 70S ribosome | X-ray diffraction | 3.2 | 2014-07-09 |
| 10 | 4WT8|1|C4 | Transfer RNA | P site trNA, mRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex | X-ray diffraction | 3.4 | 2015-01-21 |
| 11 | 4V9A|1|AC | Transfer RNA | TRNA-FMET, MRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tetracycline. | X-ray diffraction | 3.3 | 2014-07-09 |
| 12 | 4L47|1|XV | Transfer RNA | P-site tRNA fMet, messenger RNA, A-site ASL SufA6 | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-ray diffraction | 3.22 | 2014-08-06 |
| 13 | 4L47|1|QV | Transfer RNA | P-site tRNA fMet, messenger RNA, A-site ASL SufA6 | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-ray diffraction | 3.22 | 2014-08-06 |
| 14 | 4V9A|1|CC | Transfer RNA | TRNA-FMET, MRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tetracycline. | X-ray diffraction | 3.3 | 2014-07-09 |
| 15 | 4V7J|1|Aw | Transfer RNA | RNA (77-MER) | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-ray diffraction | 3.3 | 2014-07-09 |
| 16 | 4V7J|1|Bw | Transfer RNA | RNA (77-MER) | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-ray diffraction | 3.3 | 2014-07-09 |
| 17 | 4V9B|1|CD | Transfer RNA | TRNA-FMET | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tigecycline. | X-ray diffraction | 3.1 | 2014-07-09 |
| 18 | 4V9B|1|AD | Transfer RNA | TRNA-FMET | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tigecycline. | X-ray diffraction | 3.1 | 2014-07-09 |
| 19 | 4V5A|1|AW | Transfer RNA | TRNA-FMET | Escherichia coli | Bacteria | RF00005 | Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet | X-ray diffraction | 3.5 | 2014-07-09 |
| 20 | 4V5A|1|CW | Transfer RNA | TRNA-FMET | Escherichia coli | Bacteria | RF00005 | Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet | X-ray diffraction | 3.5 | 2014-07-09 |
| 21 | 4V8X|1|AV | Transfer RNA | transfer RNA, 5'-R(*GP*GP*CP*AP*AP*GP*GP*AP*GP*GP*UP*AP*AP*AP *AP*AP*UP*G U2M A2M A2MP*AP*AP*AP*A)-3' | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 22 | 4V9N|1|CW | Transfer RNA | P-site tRNA-fMet, messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3') | Thermus thermophilus | Bacteria | RF00005 | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-ray diffraction | 3.4 | 2014-07-09 |
| 23 | 4V8X|1|CV | Transfer RNA | transfer RNA, BACTERIAL TOXIN YOEB | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 24 | 4V9N|1|AW | Transfer RNA | P-site tRNA-fMet, messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3') | Thermus thermophilus | Bacteria | RF00005 | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-ray diffraction | 3.4 | 2014-07-09 |
| 25 | 4V8X|1|CW | Transfer RNA | transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 26 | 4V8X|1|AW | Transfer RNA | transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
Release history
| Release | 3.33 | 3.34 | 3.35 | 3.36 | 3.37 | 3.38 | 3.39 | 3.40 | 3.41 | 3.42 | 3.43 | 3.44 | 3.45 | 3.46 | 3.47 | 3.48 | 3.49 | 3.50 | 3.51 | 3.52 | 3.53 | 3.54 | 3.55 | 3.56 | 3.57 | 3.58 | 3.59 | 3.60 | 3.61 | 3.62 | 3.63 | 3.64 | 3.65 | 3.66 | 3.67 | 3.68 | 3.69 | 3.70 | 3.71 | 3.72 | 3.73 | 3.74 | 3.75 | 3.76 | 3.77 | 3.78 | 3.79 | 3.80 | 3.81 | 3.82 | 3.83 | 3.84 | 3.85 | 3.86 | 3.87 | 3.88 | 3.89 | 3.90 | 3.91 | 3.92 | 3.93 | 3.94 | 3.95 | 3.96 | 3.97 | 3.98 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2018-08-03 | 2018-08-10 | 2018-08-17 | 2018-08-24 | 2018-08-31 | 2018-09-07 | 2018-09-14 | 2018-09-21 | 2018-09-28 | 2018-10-05 | 2018-10-12 | 2018-10-19 | 2018-10-26 | 2018-11-02 | 2018-11-09 | 2018-11-16 | 2018-11-23 | 2018-11-30 | 2018-12-07 | 2018-12-14 | 2018-12-21 | 2018-12-28 | 2019-01-04 | 2019-01-11 | 2019-01-18 | 2019-01-25 | 2019-02-01 | 2019-02-08 | 2019-02-15 | 2019-02-22 | 2019-03-01 | 2019-03-08 | 2019-03-15 | 2019-03-22 | 2019-03-29 | 2019-04-05 | 2019-04-12 | 2019-04-19 | 2019-04-26 | 2019-05-03 | 2019-05-10 | 2019-05-17 | 2019-05-24 | 2019-05-31 | 2019-06-07 | 2019-06-14 | 2019-06-21 | 2019-06-28 | 2019-07-05 | 2019-07-12 | 2019-07-19 | 2019-07-26 | 2019-08-02 | 2019-08-09 | 2019-08-16 | 2019-08-23 | 2019-08-28 | 2019-09-04 | 2019-09-11 | 2019-09-19 | 2019-09-25 | 2019-10-03 | 2019-10-09 | 2019-10-16 | 2019-10-23 | 2019-10-30 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_20721.8 | NR_3.5_20721.7 | 3.33 | (26) 4L47|1|QV, 4V9A|1|AC, 4V9A|1|CC, 4V9B|1|AC, 4V9B|1|AD, 4V9B|1|CC, 4V9B|1|CD, 4V9N|1|AW, 4V9N|1|CW, 4WT8|1|C4, 5E81|1|2K, 5E81|1|2L, 4V95|1|CV, 4V95|1|AV, 4L47|1|XV, 4V5A|1|AW, 4V5A|1|CW, 4V7J|1|Av, 4V7J|1|Aw, 4V7J|1|Bv, 4V7J|1|Bw, 4V8X|1|AV, 4V8X|1|AW, 4V8X|1|CV, 4V8X|1|CW, 5J8B|1|x | (0) | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_20721.8 | NR_3.5_20721.9 | 3.99 | (26) 4L47|1|QV, 4V9A|1|AC, 4V9A|1|CC, 4V9B|1|AC, 4V9B|1|AD, 4V9B|1|CC, 4V9B|1|CD, 4V9N|1|AW, 4V9N|1|CW, 4WT8|1|C4, 5E81|1|2K, 5E81|1|2L, 4V95|1|CV, 4V95|1|AV, 4L47|1|XV, 4V5A|1|AW, 4V5A|1|CW, 4V7J|1|Av, 4V7J|1|Aw, 4V7J|1|Bv, 4V7J|1|Bw, 4V8X|1|AV, 4V8X|1|AW, 4V8X|1|CV, 4V8X|1|CW, 5J8B|1|x | (0) | (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 | 5E81|1|2L | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair | X-RAY DIFFRACTION | 2.95 | 72 |
| 2 | 5J8B|1|x | Crystal structure of Elongation Factor 4 (EF-4/LepA) in complex with GDPCP bound to the Thermus thermophilus 70S ribosome | X-RAY DIFFRACTION | 2.6 | 73 |
| 3 | 5E81|1|2K | Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pair | X-RAY DIFFRACTION | 2.95 | 72 |
| 4 | 4V9B|1|AC | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 |
| 5 | 4V9A|1|AC | Crystal Structure of the 70S ribosome with tetracycline. | X-RAY DIFFRACTION | 3.3 | 77 |
| 6 | 4V9B|1|CC | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 |
| 7 | 4V9A|1|CC | Crystal Structure of the 70S ribosome with tetracycline. | X-RAY DIFFRACTION | 3.3 | 77 |
| 8 | 4WT8|1|C4 | Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex | X-RAY DIFFRACTION | 3.4 | 77 |
| 9 | 4L47|1|QV | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-RAY DIFFRACTION | 3.22 | 77 |
| 10 | 4L47|1|XV | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-RAY DIFFRACTION | 3.22 | 77 |
| 11 | 4V95|1|AV | Crystal structure of YAEJ bound to the 70S ribosome | X-RAY DIFFRACTION | 3.2 | 77 |
| 12 | 4V95|1|CV | Crystal structure of YAEJ bound to the 70S ribosome | X-RAY DIFFRACTION | 3.2 | 77 |
| 13 | 4V7J|1|Av | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 76 |
| 14 | 4V7J|1|Bv | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 76 |
| 15 | 4V9N|1|CW | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-RAY DIFFRACTION | 3.4 | 77 |
| 16 | 4V9N|1|AW | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-RAY DIFFRACTION | 3.4 | 77 |
| 17 | 4V8X|1|AV | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 76 |
| 18 | 4V8X|1|CV | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 |
| 19 | 4V5A|1|AW | Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet | X-RAY DIFFRACTION | 3.5 | 76 |
| 20 | 4V5A|1|CW | Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet | X-RAY DIFFRACTION | 3.5 | 76 |
| 21 | 4V8X|1|AW | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 |
| 22 | 4V7J|1|Aw | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 77 |
| 23 | 4V8X|1|CW | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 |
| 24 | 4V7J|1|Bw | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 77 |
| 25 | 4V9B|1|CD | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 |
| 26 | 4V9B|1|AD | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 |