Equivalence class NR_3.0_83717.48 Obsolete
# | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
---|---|---|---|---|---|---|---|---|---|---|
1 | 5J7L|1|DA (rep) | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structure of the 70S E coli ribosome with the U1052G mutation in the 16S rRNA bound to tetracycline | X-ray diffraction | 3 | 2016-07-27 |
2 | 4YBB|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | High-resolution structure of the Escherichia coli ribosome | X-ray diffraction | 2.1 | 2015-03-18 |
3 | 4WOI|1|BA | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | 4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2 | X-ray diffraction | 3 | 2015-08-05 |
4 | 4WOI|1|CA | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | 4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2 | X-ray diffraction | 3 | 2015-08-05 |
5 | 6I7V|1|DA | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | Ribosomal protein paralogs bL31 and bL36 | X-ray diffraction | 2.9 | 2018-12-05 |
6 | 5J91|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structure of the Wild-type 70S E coli ribosome bound to Tigecycline | X-ray diffraction | 2.96 | 2016-07-06 |
7 | 4V9P|1|EA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
8 | 4V9P|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
9 | 4V9P|1|GA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
10 | 4V9P|1|AA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
11 | 4V9D|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structures of the bacterial ribosome in classical and hybrid states of tRNA binding | X-ray diffraction | 3 | 2014-07-09 |
12 | 4V9O|1|AA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
13 | 4V9O|1|EA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
14 | 4V9O|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
15 | 5J7L|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structure of the 70S E coli ribosome with the U1052G mutation in the 16S rRNA bound to tetracycline | X-ray diffraction | 3 | 2016-07-27 |
16 | 4U27|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to flopristin and linopristin. | X-ray diffraction | 2.8 | 2014-07-30 |
17 | 4U24|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to dalfopristin. | X-ray diffraction | 2.9 | 2014-07-30 |
18 | 4U25|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to virginiamycin M1. | X-ray diffraction | 2.9 | 2014-07-30 |
19 | 4V9D|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structures of the bacterial ribosome in classical and hybrid states of tRNA binding | X-ray diffraction | 3 | 2014-07-09 |
20 | 4U26|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to dalfopristin and quinupristin. | X-ray diffraction | 2.8 | 2014-07-30 |
21 | 4V9O|1|GA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Control of ribosomal subunit rotation by elongation factor G | X-ray diffraction | 2.9 | 2014-07-09 |
22 | 4U1U|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to quinupristin. | X-ray diffraction | 2.95 | 2014-07-30 |
23 | 4YBB|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | High-resolution structure of the Escherichia coli ribosome | X-ray diffraction | 2.1 | 2015-03-18 |
24 | 4U1V|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to linopristin. | X-ray diffraction | 3 | 2014-07-30 |
25 | 4U20|1|BA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to flopristin. | X-ray diffraction | 2.9 | 2014-07-30 |
26 | 6I7V|1|CA | Large subunit ribosomal RNA | 23S ribsomal RNA | Escherichia coli | Bacteria | RF02541 | Ribosomal protein paralogs bL31 and bL36 | X-ray diffraction | 2.9 | 2018-12-05 |
27 | 4U27|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to flopristin and linopristin. | X-ray diffraction | 2.8 | 2014-07-30 |
28 | 4U25|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to virginiamycin M1. | X-ray diffraction | 2.9 | 2014-07-30 |
29 | 4U1U|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to quinupristin. | X-ray diffraction | 2.95 | 2014-07-30 |
30 | 4U1V|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to linopristin. | X-ray diffraction | 3 | 2014-07-30 |
31 | 4U24|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to dalfopristin. | X-ray diffraction | 2.9 | 2014-07-30 |
32 | 4U26|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to dalfopristin and quinupristin. | X-ray diffraction | 2.8 | 2014-07-30 |
33 | 4U20|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Crystal structure of the E. coli ribosome bound to flopristin. | X-ray diffraction | 2.9 | 2014-07-30 |
34 | 5J91|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structure of the Wild-type 70S E coli ribosome bound to Tigecycline | X-ray diffraction | 2.96 | 2016-07-06 |
35 | 5J5B|1|DA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structure of the WT E coli ribosome bound to tetracycline | X-ray diffraction | 2.8 | 2016-07-27 |
36 | 5J5B|1|CA | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | Structure of the WT E coli ribosome bound to tetracycline | X-ray diffraction | 2.8 | 2016-07-27 |
37 | 6HRM|1|1 | Small subunit ribosomal RNA | stapled 16S-23S rRNA,stapled 16S-23S rRNA,stapled 16S-23S rRNA,stapled 16S-23S rRNA | Escherichia coli | Bacteria | RF00177 | E. coli 70S d2d8 stapled ribosome | Electron microscopy | 2.96 | 2018-12-19 |
38 | 5AFI|1|A | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | 2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM | Electron microscopy | 2.9 | 2015-03-11 |
39 | 5NWY|1|N | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | 2.9 A cryo-EM structure of VemP-stalled ribosome-nascent chain complex | Electron microscopy | 2.9 | 2017-07-19 |
40 | 6ORE|1|1 | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | Release complex 70S | Electron microscopy | 2.9 | 2019-06-19 |
41 | 5MDV|1|1 | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | Structure of ArfA and RF2 bound to the 70S ribosome (accommodated state) | Electron microscopy | 2.97 | 2016-12-14 |
42 | 6H4N|1|A | Large subunit ribosomal RNA | 23S ribosomal RNA | Escherichia coli | Bacteria | RF02541 | Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1 - 70S Hibernating E. coli Ribosome | Electron microscopy | 3 | 2018-09-05 |
43 | 6QUL|1|A | Large subunit ribosomal RNA | 23S rRNA, P-site fMet-tRNA(fMet) | Escherichia coli | Bacteria | RF02541 | Structure of a bacterial 50S ribosomal subunit in complex with the novel quinoxolidinone antibiotic cadazolid | Electron microscopy | 3 | 2019-04-10 |
44 | 5WFS|1|A | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | 70S ribosome-EF-Tu H84A complex with GTP and near-cognate tRNA (Complex C4) | Electron microscopy | 3 | 2018-05-02 |
45 | 5WDT|1|A | Large subunit ribosomal RNA | 23S rRNA | Escherichia coli | Bacteria | RF02541 | 70S ribosome-EF-Tu H84A complex with GppNHp | Electron microscopy | 3 | 2018-04-25 |
46 | 5IQR|1|1 | Large subunit ribosomal RNA | LSU rRNA | Escherichia coli | Bacteria | RF02541 | Structure of RelA bound to the 70S ribosome | Electron microscopy | 3 | 2016-05-04 |
Release history
Release | 3.79 |
---|---|
Date | 2019-06-21 |
Parents
This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
---|---|---|---|---|---|
NR_3.0_83717.48 | NR_3.0_83717.47 | 3.79 | (45) 5AFI|1|A, 4YBB|1|DA, 4YBB|1|CA, 4WOI|1|CA, 4WOI|1|BA, 4V9P|1|GA, 4V9P|1|EA, 4V9P|1|CA, 4V9P|1|AA, 4V9O|1|GA, 4V9O|1|EA, 4V9O|1|CA, 4V9O|1|AA, 4V9D|1|DA, 4V9D|1|CA, 4U27|1|DA, 4U27|1|BA, 6QUL|1|A, 4U26|1|DA, 6I7V|1|DA, 4U26|1|BA, 6I7V|1|CA, 4U25|1|DA, 6HRM|1|1, 4U25|1|BA, 6H4N|1|A, 4U24|1|DA, 5WFS|1|A, 4U24|1|BA, 5WDT|1|A, 4U20|1|DA, 5NWY|1|N, 4U20|1|BA, 5MDV|1|1, 4U1V|1|DA, 5J91|1|DA, 4U1V|1|BA, 5J91|1|CA, 4U1U|1|DA, 5J7L|1|DA, 4U1U|1|BA, 5J7L|1|CA, 5J5B|1|DA, 5J5B|1|CA, 5IQR|1|1 | (1) 6ORE|1|1 | (0) |
Children
This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
---|---|---|---|---|---|
NR_3.0_83717.48 | NR_3.0_83717.49 | 3.80 | (46) 6QUL|1|A, 5J7L|1|CA, 5J5B|1|DA, 5J5B|1|CA, 5IQR|1|1, 5AFI|1|A, 4YBB|1|DA, 4YBB|1|CA, 4WOI|1|CA, 4WOI|1|BA, 5J7L|1|DA, 5J91|1|CA, 5J91|1|DA, 6ORE|1|1, 6I7V|1|DA, 6I7V|1|CA, 6HRM|1|1, 6H4N|1|A, 5WFS|1|A, 5WDT|1|A, 5NWY|1|N, 5MDV|1|1, 4V9P|1|GA, 4V9P|1|EA, 4U25|1|DA, 4U25|1|BA, 4U24|1|DA, 4U24|1|BA, 4U20|1|DA, 4U20|1|BA, 4U1V|1|DA, 4U1V|1|BA, 4U1U|1|DA, 4U26|1|BA, 4U26|1|DA, 4U27|1|BA, 4V9P|1|CA, 4V9P|1|AA, 4V9O|1|GA, 4V9O|1|EA, 4V9O|1|CA, 4V9O|1|AA, 4V9D|1|DA, 4V9D|1|CA, 4U27|1|DA, 4U1U|1|BA | (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 | 4WOI|1|BA | 4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2 | X-RAY DIFFRACTION | 3 | 2897 |
2 | 4V9D|1|CA | Structures of the bacterial ribosome in classical and hybrid states of tRNA binding | X-RAY DIFFRACTION | 3 | 2897 |
3 | 4U1U|1|BA | Crystal structure of the E. coli ribosome bound to quinupristin. | X-RAY DIFFRACTION | 2.95 | 2897 |
4 | 4U20|1|BA | Crystal structure of the E. coli ribosome bound to flopristin. | X-RAY DIFFRACTION | 2.9 | 2897 |
5 | 4U1V|1|BA | Crystal structure of the E. coli ribosome bound to linopristin. | X-RAY DIFFRACTION | 3 | 2897 |
6 | 4U27|1|BA | Crystal structure of the E. coli ribosome bound to flopristin and linopristin. | X-RAY DIFFRACTION | 2.8 | 2897 |
7 | 4U25|1|BA | Crystal structure of the E. coli ribosome bound to virginiamycin M1. | X-RAY DIFFRACTION | 2.9 | 2897 |
8 | 4U26|1|BA | Crystal structure of the E. coli ribosome bound to dalfopristin and quinupristin. | X-RAY DIFFRACTION | 2.8 | 2897 |
9 | 4U24|1|BA | Crystal structure of the E. coli ribosome bound to dalfopristin. | X-RAY DIFFRACTION | 2.9 | 2897 |
10 | 6QUL|1|A | Structure of a bacterial 50S ribosomal subunit in complex with the novel quinoxolidinone antibiotic cadazolid | ELECTRON MICROSCOPY | 3 | 2799 |
11 | 5WFS|1|A | 70S ribosome-EF-Tu H84A complex with GTP and near-cognate tRNA (Complex C4) | ELECTRON MICROSCOPY | 3 | 2876 |
12 | 5WDT|1|A | 70S ribosome-EF-Tu H84A complex with GppNHp | ELECTRON MICROSCOPY | 3 | 2876 |
13 | 5AFI|1|A | 2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM | ELECTRON MICROSCOPY | 2.9 | 2876 |
14 | 6H4N|1|A | Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1 - 70S Hibernating E. coli Ribosome | ELECTRON MICROSCOPY | 3 | 2900 |
15 | 5NWY|1|N | 2.9 A cryo-EM structure of VemP-stalled ribosome-nascent chain complex | ELECTRON MICROSCOPY | 2.9 | 2898 |
16 | 6ORE|1|1 | Release complex 70S | ELECTRON MICROSCOPY | 2.9 | 2881 |
17 | 5MDV|1|1 | Structure of ArfA and RF2 bound to the 70S ribosome (accommodated state) | ELECTRON MICROSCOPY | 2.97 | 2881 |
18 | 5IQR|1|1 | Structure of RelA bound to the 70S ribosome | ELECTRON MICROSCOPY | 3 | 2882 |
19 | 4V9P|1|CA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
20 | 4V9O|1|CA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
21 | 4V9O|1|AA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
22 | 4V9P|1|AA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
23 | 4V9P|1|EA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
24 | 4V9O|1|EA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
25 | 4V9O|1|GA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
26 | 4V9P|1|GA | Control of ribosomal subunit rotation by elongation factor G | X-RAY DIFFRACTION | 2.9 | 2854 |
27 | 4WOI|1|CA | 4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2 | X-RAY DIFFRACTION | 3 | 2897 |
28 | 4V9D|1|DA | Structures of the bacterial ribosome in classical and hybrid states of tRNA binding | X-RAY DIFFRACTION | 3 | 2896 |
29 | 4U1U|1|DA | Crystal structure of the E. coli ribosome bound to quinupristin. | X-RAY DIFFRACTION | 2.95 | 2897 |
30 | 4U20|1|DA | Crystal structure of the E. coli ribosome bound to flopristin. | X-RAY DIFFRACTION | 2.9 | 2897 |
31 | 4U1V|1|DA | Crystal structure of the E. coli ribosome bound to linopristin. | X-RAY DIFFRACTION | 3 | 2897 |
32 | 4U27|1|DA | Crystal structure of the E. coli ribosome bound to flopristin and linopristin. | X-RAY DIFFRACTION | 2.8 | 2897 |
33 | 4U25|1|DA | Crystal structure of the E. coli ribosome bound to virginiamycin M1. | X-RAY DIFFRACTION | 2.9 | 2897 |
34 | 4U26|1|DA | Crystal structure of the E. coli ribosome bound to dalfopristin and quinupristin. | X-RAY DIFFRACTION | 2.8 | 2897 |
35 | 4U24|1|DA | Crystal structure of the E. coli ribosome bound to dalfopristin. | X-RAY DIFFRACTION | 2.9 | 2897 |
36 | 6I7V|1|CA | Ribosomal protein paralogs bL31 and bL36 | X-RAY DIFFRACTION | 2.9 | 2898 |
37 | 4YBB|1|CA | High-resolution structure of the Escherichia coli ribosome | X-RAY DIFFRACTION | 2.1 | 2876 |
38 | 5J91|1|CA | Structure of the Wild-type 70S E coli ribosome bound to Tigecycline | X-RAY DIFFRACTION | 2.96 | 2876 |
39 | 5J5B|1|CA | Structure of the WT E coli ribosome bound to tetracycline | X-RAY DIFFRACTION | 2.8 | 2876 |
40 | 5J7L|1|CA | Structure of the 70S E coli ribosome with the U1052G mutation in the 16S rRNA bound to tetracycline | X-RAY DIFFRACTION | 3 | 2875 |
41 | 6I7V|1|DA | Ribosomal protein paralogs bL31 and bL36 | X-RAY DIFFRACTION | 2.9 | 2875 |
42 | 5J5B|1|DA | Structure of the WT E coli ribosome bound to tetracycline | X-RAY DIFFRACTION | 2.8 | 2886 |
43 | 5J91|1|DA | Structure of the Wild-type 70S E coli ribosome bound to Tigecycline | X-RAY DIFFRACTION | 2.96 | 2886 |
44 | 5J7L|1|DA | Structure of the 70S E coli ribosome with the U1052G mutation in the 16S rRNA bound to tetracycline | X-RAY DIFFRACTION | 3 | 2886 |
45 | 4YBB|1|DA | High-resolution structure of the Escherichia coli ribosome | X-RAY DIFFRACTION | 2.1 | 2883 |
46 | 6HRM|1|1 | E. coli 70S d2d8 stapled ribosome | ELECTRON MICROSCOPY | 2.96 | 4417 |
Coloring options: