Equivalence class NR_20.0_20721.5 Obsolete
# | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
---|---|---|---|---|---|---|---|---|---|---|
1 | 4V9B|1|AC (rep) | 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 |
2 | 4V5M|1|AV | Transfer RNA | TRNA, MRNA | Thermus thermophilus | Bacteria | RF00005 | tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE) | Electron microscopy | 7.8 | 2014-07-09 |
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 | 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 |
5 | 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 |
6 | 4V5N|1|AV | Transfer RNA | TRNA, MRNA | Thermus thermophilus | Bacteria | RF00005 | tRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST) | Electron microscopy | 7.6 | 2014-07-09 |
7 | 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 |
8 | 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 |
9 | 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 |
10 | 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 |
11 | 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 |
12 | 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 |
13 | 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 |
14 | 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 |
15 | 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 |
16 | 5E81|1|2K | 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 |
17 | 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 |
18 | 4V7K|1|Bv | Transfer RNA | RNA (77-MER), RNA (5'-R(*A*AP*GP*UP*AP*AP*AP*AP*AP*UP*GP*UP*A*(CCC))-3') | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-ray diffraction | 3.6 | 2014-07-09 |
19 | 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 |
20 | 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 |
21 | 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 |
22 | 3JA1|1|S2 | Transfer RNA | P/E-tRNA, mRNA | Thermus thermophilus | Bacteria | RF00005 | Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G | Electron microscopy | 3.6 | 2015-07-01 |
23 | 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 |
24 | 4V68|1|AV | Transfer RNA | P-SITE TRNA, SYNTHETIC MRNA | Thermus thermophilus | Bacteria | RF00005 | T. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map. | Electron microscopy | 6.4 | 2014-07-09 |
25 | 4V7K|1|Av | Transfer RNA | RNA (77-MER), RNA (5'-R(*A*AP*GP*UP*AP*AP*AP*AP*AP*UP*GP*UP*A*(CCC))-3') | Thermus thermophilus | Bacteria | RF00005 | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-ray diffraction | 3.6 | 2014-07-09 |
26 | 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 |
27 | 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 |
28 | 4V4J|1|z | Transfer RNA | P-site tRNAfMET, MRNA | Thermus thermophilus | Bacteria | RF00005 | Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. | X-ray diffraction | 3.83 | 2014-07-09 |
29 | 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 |
30 | 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 |
31 | 4V8X|1|CW | Transfer RNA | transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
32 | 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 |
33 | 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 |
34 | 4V8X|1|AW | Transfer RNA | transfer RNA | Thermus thermophilus | Bacteria | RF00005 | Structure of Thermus thermophilus ribosome | X-ray diffraction | 3.35 | 2014-07-09 |
35 | 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 |
36 | 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 |
37 | 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 |
38 | 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 |
Release history
Parents
This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
---|---|---|---|---|---|
NR_20.0_20721.5 | NR_all_20721.4 | 2.77 | (37) 5E81|1|2L, 4V4J|1|z, 5E81|1|2K, 4L47|1|XV, 4WT8|1|C4, 4L47|1|QV, 4V9N|1|CW, 3JA1|1|S2, 4V9N|1|AW, 3J9Z|1|S6, 4V9B|1|CD, 4V9B|1|CC, 4V9B|1|AD, 4V9B|1|AC, 4V9A|1|CC, 4V9A|1|AC, 4V95|1|CV, 4V95|1|AV, 4V8X|1|CW, 4V8X|1|CV, 4V8X|1|AW, 4V8X|1|AV, 4V8U|1|CW, 4V8U|1|AW, 4V7K|1|Bw, 4V7K|1|Bv, 4V7K|1|Aw, 4V7K|1|Av, 4V7J|1|Bw, 4V7J|1|Bv, 4V7J|1|Aw, 4V7J|1|Av, 4V68|1|AV, 4V5N|1|AV, 4V5M|1|AV, 4V5A|1|CW, 4V5A|1|AW | (1) 5J8B|1|x | (0) |
Children
This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
---|---|---|---|---|---|
NR_20.0_20721.5 | NR_20.0_20721.6 | 2.96 | (38) 3J9Z|1|S6, 4V5N|1|AV, 4V7K|1|Bv, 4V95|1|AV, 4V9N|1|AW, 4V5M|1|AV, 4V7K|1|Aw, 4V8X|1|CW, 4V9B|1|CD, 4V5A|1|CW, 4V7K|1|Av, 4V8X|1|CV, 4V9B|1|CC, 5J8B|1|x, 4V5A|1|AW, 4V7J|1|Bw, 4V8X|1|AW, 4V9B|1|AD, 4V4J|1|z, 4V7J|1|Bv, 4V8X|1|AV, 4V9B|1|AC, 5E81|1|2L, 4L47|1|XV, 4V7J|1|Aw, 4V8U|1|CW, 4V9A|1|CC, 5E81|1|2K, 4L47|1|QV, 4V7J|1|Av, 4V8U|1|AW, 4V9A|1|AC, 4WT8|1|C4, 3JA1|1|S2, 4V68|1|AV, 4V7K|1|Bw, 4V95|1|CV, 4V9N|1|CW | (0) | (2) 5LMR|1|Z, 5LMT|1|Z |
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 | 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 | 4V68|1|AV | T. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map. | ELECTRON MICROSCOPY | 6.4 | 76 |
11 | 4L47|1|QV | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-RAY DIFFRACTION | 3.22 | 77 |
12 | 4L47|1|XV | Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome | X-RAY DIFFRACTION | 3.22 | 77 |
13 | 4V95|1|CV | Crystal structure of YAEJ bound to the 70S ribosome | X-RAY DIFFRACTION | 3.2 | 77 |
14 | 4V95|1|AV | Crystal structure of YAEJ bound to the 70S ribosome | X-RAY DIFFRACTION | 3.2 | 77 |
15 | 4V7J|1|Av | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 76 |
16 | 4V7K|1|Av | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 76 |
17 | 4V7K|1|Bv | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 76 |
18 | 4V7J|1|Bv | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 76 |
19 | 4V9N|1|CW | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-RAY DIFFRACTION | 3.4 | 77 |
20 | 4V9N|1|AW | Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. | X-RAY DIFFRACTION | 3.4 | 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 | 4V4J|1|z | Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. | X-RAY DIFFRACTION | 3.83 | 77 |
24 | 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 |
25 | 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 |
26 | 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 |
27 | 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 |
28 | 4V7K|1|Aw | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 77 |
29 | 4V8X|1|AW | 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|CW | Structure of Thermus thermophilus ribosome | X-RAY DIFFRACTION | 3.35 | 77 |
32 | 4V7J|1|Bw | Structure of RelE nuclease bound to the 70S ribosome (precleavage state) | X-RAY DIFFRACTION | 3.3 | 77 |
33 | 4V7K|1|Bw | Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) | X-RAY DIFFRACTION | 3.6 | 77 |
34 | 4V9B|1|CD | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 |
35 | 4V9B|1|AD | Crystal Structure of the 70S ribosome with tigecycline. | X-RAY DIFFRACTION | 3.1 | 77 |
36 | 4V5N|1|AV | tRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST) | ELECTRON MICROSCOPY | 7.6 | 77 |
37 | 4V5M|1|AV | tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE) | ELECTRON MICROSCOPY | 7.8 | 77 |
38 | 3JA1|1|S2 | Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G | ELECTRON MICROSCOPY | 3.6 | 77 |
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