Equivalence class NR_3.5_17405.7 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 4IOA|1|Y (rep) | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-ray diffraction | 3.2 | 2013-03-06 |
| 2 | 4IO9|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-ray diffraction | 3.2 | 2013-03-06 |
| 3 | 5JVG|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | The large ribosomal subunit from Deinococcus radiodurans in complex with avilamycin | X-ray diffraction | 3.43 | 2016-11-09 |
| 4 | 5DM6|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans | X-ray diffraction | 2.9 | 2015-11-11 |
| 5 | 3PIO|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit | X-ray diffraction | 3.25 | 2011-02-23 |
| 6 | 3PIP|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit | X-ray diffraction | 3.45 | 2011-02-23 |
| 7 | 5DM7|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with hygromycin A | X-ray diffraction | 3 | 2015-11-11 |
| 8 | 3DLL|1|Z | 5S ribosomal RNA | rRNA-5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning | X-ray diffraction | 3.5 | 2008-09-16 |
| 9 | 1Y69|1|9 | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans | X-ray diffraction | 3.33 | 2005-03-01 |
| 10 | 2ZJR|1|Y | 5S ribosomal RNA | ribosomal 5S RNA | Deinococcus radiodurans | Bacteria | RF00001 | Refined native structure of the large ribosomal subunit (50S) from Deinococcus radiodurans | X-ray diffraction | 2.91 | 2008-06-17 |
| 11 | 3CF5|1|Z | 5S ribosomal RNA | RRNA-5S RIBOSOMAL RNA | Deinococcus radiodurans | Bacteria | RF00001 | Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radiodurans | X-ray diffraction | 3.3 | 2008-06-17 |
| 12 | 2ZJQ|1|Y | 5S ribosomal RNA | ribosomal 5S RNA | Deinococcus radiodurans | Bacteria | RF00001 | Interaction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunit | X-ray diffraction | 3.3 | 2008-06-17 |
| 13 | 1SM1|1|9 | 5S ribosomal RNA | 5S RIBOSOMAL RNA | Deinococcus radiodurans | Bacteria | RF00001 | COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN | X-ray diffraction | 3.42 | 2004-08-03 |
| 14 | 1NKW|1|9 | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans | X-ray diffraction | 3.1 | 2003-02-11 |
| 15 | 1NWY|1|9 | 5S ribosomal RNA | 5S RIBOSOMAL RRNA | Deinococcus radiodurans | Bacteria | RF00001 | COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCIN | X-ray diffraction | 3.3 | 2003-03-18 |
| 16 | 1XBP|1|9 | 5S ribosomal RNA | 5S RIBOSOMAL RNA | Deinococcus radiodurans | Bacteria | RF00001 | Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin | X-ray diffraction | 3.5 | 2005-03-01 |
| 17 | 1NWX|1|9 | 5S ribosomal RNA | 5S RIBOSOMAL RNA | Deinococcus radiodurans | Bacteria | RF00001 | COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773 | X-ray diffraction | 3.5 | 2003-03-18 |
Release history
| Release | 3.151 | 3.152 | 3.153 | 3.154 | 3.155 | 3.156 | 3.157 | 3.158 | 3.159 | 3.160 | 3.161 | 3.162 | 3.163 | 3.164 | 3.165 | 3.166 | 3.167 | 3.168 | 3.169 | 3.170 | 3.171 | 3.172 | 3.173 | 3.174 | 3.175 | 3.176 | 3.177 | 3.178 | 3.179 | 3.180 | 3.181 | 3.182 | 3.183 | 3.184 | 3.185 | 3.186 | 3.187 | 3.188 | 3.189 | 3.190 | 3.191 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2020-11-04 | 2020-11-11 | 2020-11-18 | 2020-11-25 | 2020-12-02 | 2020-12-09 | 2020-12-16 | 2020-12-23 | 2020-12-30 | 2021-01-06 | 2021-01-13 | 2021-01-20 | 2021-01-27 | 2021-02-03 | 2021-02-10 | 2021-02-17 | 2021-02-24 | 2021-03-03 | 2021-03-10 | 2021-03-17 | 2021-03-24 | 2021-03-31 | 2021-04-07 | 2021-04-14 | 2021-04-21 | 2021-04-28 | 2021-05-05 | 2021-05-12 | 2021-05-19 | 2021-05-26 | 2021-06-02 | 2021-06-09 | 2021-06-16 | 2021-06-23 | 2021-06-30 | 2021-07-07 | 2021-07-14 | 2021-07-21 | 2021-07-28 | 2021-08-04 | 2021-08-11 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_3.5_17405.7 | NR_3.5_17405.6 | 3.151 | (17) 1NKW|1|9, 1NWX|1|9, 1NWY|1|9, 1SM1|1|9, 1XBP|1|9, 1Y69|1|9, 2ZJQ|1|Y, 2ZJR|1|Y, 3CF5|1|Z, 3DLL|1|Z, 3PIO|1|Y, 3PIP|1|Y, 4IO9|1|Y, 4IOA|1|Y, 5DM6|1|Y, 5DM7|1|Y, 5JVG|1|Y | (0) | (1) 5DM8|1|Y |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_17405.7 | NR_3.5_17405.8 | 3.192 | (17) 1NKW|1|9, 1NWX|1|9, 1NWY|1|9, 1SM1|1|9, 1XBP|1|9, 1Y69|1|9, 2ZJQ|1|Y, 2ZJR|1|Y, 3CF5|1|Z, 3DLL|1|Z, 3PIO|1|Y, 3PIP|1|Y, 4IO9|1|Y, 4IOA|1|Y, 5DM6|1|Y, 5DM7|1|Y, 5JVG|1|Y | (0) | (2) 7A0R|1|Y, 7A0S|1|Y |
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.
| #S | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|
| 1 | 3DLL|1|Z | The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning | X-RAY DIFFRACTION | 3.5 | 122 |
| 2 | 4IOA|1|Y | Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.2 | 122 |
| 3 | 4IO9|1|Y | Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.2 | 122 |
| 4 | 2ZJQ|1|Y | Interaction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunit | X-RAY DIFFRACTION | 3.3 | 122 |
| 5 | 3CF5|1|Z | Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radiodurans | X-RAY DIFFRACTION | 3.3 | 122 |
| 6 | 2ZJR|1|Y | Refined native structure of the large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 2.91 | 122 |
| 7 | 3PIP|1|Y | Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit | X-RAY DIFFRACTION | 3.45 | 120 |
| 8 | 3PIO|1|Y | Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit | X-RAY DIFFRACTION | 3.25 | 120 |
| 9 | 5JVG|1|Y | The large ribosomal subunit from Deinococcus radiodurans in complex with avilamycin | X-RAY DIFFRACTION | 3.43 | 120 |
| 10 | 5DM6|1|Y | Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans | X-RAY DIFFRACTION | 2.9 | 122 |
| 11 | 5DM7|1|Y | Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with hygromycin A | X-RAY DIFFRACTION | 3 | 122 |
| 12 | 1Y69|1|9 | RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.33 | 118 |
| 13 | 1XBP|1|9 | Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin | X-RAY DIFFRACTION | 3.5 | 118 |
| 14 | 1NWX|1|9 | COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773 | X-RAY DIFFRACTION | 3.5 | 118 |
| 15 | 1NKW|1|9 | Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans | X-RAY DIFFRACTION | 3.1 | 118 |
| 16 | 1NWY|1|9 | COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCIN | X-RAY DIFFRACTION | 3.3 | 118 |
| 17 | 1SM1|1|9 | COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN | X-RAY DIFFRACTION | 3.42 | 118 |
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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