Equivalence class NR_4.0_20721.6 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5E81|1|2K (rep) | Transfer RNA | mRNA, tRNA-fMet | 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 | mRNA, P-site tRNA | 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 | mRNA, P-site fMet-tRNA | 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 (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'), 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 |
| 5 | 4V9B|1|AC | Transfer RNA | MRNA, TRNA-FMET | 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 (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'), 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 |
| 7 | 5E81|1|2L | Transfer RNA | mRNA, tRNA-fMet | 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 | MRNA, TRNA-FMET | 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 | mRNA, P-site fMet-tRNA | Thermus thermophilus | Bacteria | RF00005 | Crystal structure of YAEJ bound to the 70S ribosome | X-ray diffraction | 3.2 | 2014-07-09 |
| 10 | 4V7K|1|Bv | Transfer RNA | RNA (5'-R(*A*AP*GP*UP*AP*AP*AP*AP*AP*UP*GP*UP*A*(CCC))-3'), RNA (77-MER) | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-ray diffraction | 3.6 | 2014-07-09 |
| 11 | 4V7K|1|Av | Transfer RNA | RNA (5'-R(*A*AP*GP*UP*AP*AP*AP*AP*AP*UP*GP*UP*A*(CCC))-3'), RNA (77-MER) | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-ray diffraction | 3.6 | 2014-07-09 |
| 12 | 4WT8|1|C4 | Transfer RNA | mRNA, P site trNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex | X-ray diffraction | 3.4 | 2015-01-21 |
| 13 | 4V9A|1|AC | Transfer RNA | MRNA, TRNA-FMET | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tetracycline. | X-ray diffraction | 3.3 | 2014-07-09 |
| 14 | 4L47|1|XV | Transfer RNA | A-site ASL SufA6, messenger RNA, P-site tRNA fMet | 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 |
| 15 | 4V7K|1|Bw | Transfer RNA | RNA (77-MER) | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-ray diffraction | 3.6 | 2014-07-09 |
| 16 | 4L47|1|QV | Transfer RNA | A-site ASL SufA6, messenger RNA, P-site tRNA fMet | 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 |
| 17 | 4V7K|1|Aw | Transfer RNA | RNA (77-MER) | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-ray diffraction | 3.6 | 2014-07-09 |
| 18 | 4V9A|1|CC | Transfer RNA | MRNA, TRNA-FMET | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of the 70S ribosome with tetracycline. | X-ray diffraction | 3.3 | 2014-07-09 |
| 19 | 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 |
| 20 | 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 |
| 21 | 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 |
| 22 | 4V4J|1|z | Transfer RNA | MRNA, P-site tRNAfMET | Thermus thermophilus | Bacteria | RF00005 | Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. | X-ray diffraction | 3.83 | 2014-07-09 |
| 23 | 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 |
| 24 | 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 |
| 25 | 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 |
| 26 | 4V8X|1|AV | 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', transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 27 | 4V9N|1|CW | Transfer RNA | messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3'), P-site tRNA-fMet | 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 |
| 28 | 4V8X|1|CV | Transfer RNA | BACTERIAL TOXIN YOEB, transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 29 | 4V9N|1|AW | Transfer RNA | messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3'), P-site tRNA-fMet | 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 |
| 30 | 4V8U|1|CW | Transfer RNA | RNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex. | X-ray diffraction | 3.7 | 2014-07-09 |
| 31 | 4V8U|1|AW | Transfer RNA | RNA | Thermus thermophilus | Bacteria | RF00005 | Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex. | X-ray diffraction | 3.7 | 2014-07-09 |
| 32 | 4V8X|1|CW | Transfer RNA | transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 33 | 4V8X|1|AW | Transfer RNA | transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
| 34 | 3J9Z|1|S6 | Transfer RNA | P-tRNA | Thermus thermophilus | Bacteria | RF00005 | Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G | Electron microscopy | 3.6 | 2015-07-01 |
| 35 | 3JA1|1|S2 | Transfer RNA | mRNA, P/E-tRNA | Thermus thermophilus | Bacteria | RF00005 | Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G | Electron microscopy | 3.6 | 2015-07-01 |
Release history
| Release | 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 | 3.0 | 3.1 | 3.2 | 3.3 | 3.4 | 3.5 | 3.6 | 3.7 | 3.8 | 3.9 | 3.10 | 3.11 | 3.12 | 3.13 | 3.14 | 3.15 | 3.16 | 3.17 | 3.18 | 3.19 | 3.20 | 3.21 | 3.22 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 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 | 2017-12-15 | 2017-12-22 | 2017-12-29 | 2018-01-05 | 2018-01-12 | 2018-01-19 | 2018-01-26 | 2018-02-02 | 2018-02-09 | 2018-02-16 | 2018-02-23 | 2018-03-01 | 2018-03-08 | 2018-03-15 | 2018-03-22 | 2018-03-29 | 2018-04-06 | 2018-04-13 | 2018-04-20 | 2018-04-27 | 2018-05-04 | 2018-05-11 | 2018-05-18 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_20721.6 | NR_4.0_20721.5 | 2.96 | (35) 3J9Z|1|S6, 3JA1|1|S2, 4L47|1|QV, 4L47|1|XV, 4V4J|1|z, 4V5A|1|AW, 4V5A|1|CW, 4V7J|1|Av, 4V7J|1|Aw, 4V7J|1|Bv, 4V7J|1|Bw, 4V7K|1|Av, 4V7K|1|Aw, 4V7K|1|Bv, 4V7K|1|Bw, 4V8U|1|AW, 4V8U|1|CW, 4V8X|1|AV, 4V8X|1|AW, 4V8X|1|CV, 4V8X|1|CW, 4V95|1|AV, 4V95|1|CV, 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, 5J8B|1|x | (0) | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_20721.6 | NR_4.0_20721.7 | 3.23 | (35) 3J9Z|1|S6, 3JA1|1|S2, 4L47|1|QV, 4L47|1|XV, 4V4J|1|z, 4V5A|1|AW, 4V5A|1|CW, 4V7J|1|Av, 4V7J|1|Aw, 4V7J|1|Bv, 4V7J|1|Bw, 4V7K|1|Av, 4V7K|1|Aw, 4V7K|1|Bv, 4V7K|1|Bw, 4V8U|1|AW, 4V8U|1|CW, 4V8X|1|AV, 4V8X|1|AW, 4V8X|1|CV, 4V8X|1|CW, 4V95|1|AV, 4V95|1|CV, 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, 5J8B|1|x | (0) | (4) 6BOK|1|D, 6BOK|1|GB, 6BOK|1|IA, 6BOK|1|LC |
Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|---|
| 1 | 3J9Z|1|S6 | Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G | ELECTRON MICROSCOPY | 3.6 | 77 | |
| 2 | 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 | |
| 3 | 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 | |
| 4 | 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 | |
| 5 | 4V9B|1|AC | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 | |
| 6 | 4V9A|1|AC | Crystal Structure of the 70S ribosome with tetracycline. | X-RAY DIFFRACTION | 3.3 | 77 | |
| 7 | 4V9B|1|CC | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 | |
| 8 | 4V9A|1|CC | Crystal Structure of the 70S ribosome with tetracycline. | X-RAY DIFFRACTION | 3.3 | 77 | |
| 9 | 4WT8|1|C4 | Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex | X-RAY DIFFRACTION | 3.4 | 77 | |
| 10 | 4L47|1|QV | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-RAY DIFFRACTION | 3.22 | 77 | |
| 11 | 4L47|1|XV | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-RAY DIFFRACTION | 3.22 | 77 | |
| 12 | 4V95|1|AV | 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 | 4V7K|1|Av | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 76 | |
| 15 | 4V7J|1|Bv | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 76 | |
| 16 | 4V7K|1|Bv | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 76 | |
| 17 | 4V9N|1|CW | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-RAY DIFFRACTION | 3.4 | 77 | |
| 18 | 4V9N|1|AW | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-RAY DIFFRACTION | 3.4 | 77 | |
| 19 | 4V95|1|CV | Crystal structure of YAEJ bound to the 70S ribosome | X-RAY DIFFRACTION | 3.2 | 77 | |
| 20 | 4V4J|1|z | Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. | X-RAY DIFFRACTION | 3.83 | 77 | |
| 21 | 4V8X|1|CV | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 | |
| 22 | 4V8X|1|AV | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 76 | |
| 23 | 4V8U|1|AW | Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex. | X-RAY DIFFRACTION | 3.7 | 76 | |
| 24 | 4V8U|1|CW | Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex. | X-RAY DIFFRACTION | 3.7 | 76 | |
| 25 | 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 | |
| 26 | 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 | |
| 27 | 4V7K|1|Bw | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 77 | |
| 28 | 4V7J|1|Bw | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 77 | |
| 29 | 4V8X|1|CW | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 | |
| 30 | 4V7J|1|Aw | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 77 | |
| 31 | 4V8X|1|AW | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 | |
| 32 | 4V7K|1|Aw | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 77 | |
| 33 | 4V9B|1|CD | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 | |
| 34 | 4V9B|1|AD | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 | |
| 35 | 3JA1|1|S2 | Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G | ELECTRON MICROSCOPY | 3.6 | 77 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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