Equivalence class NR_4.0_45748.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5DM6|1|Y (rep) | 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 |
| 2 | 4IOA|1|Y | 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 |
| 3 | 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 |
| 4 | 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 |
| 5 | 2ZJP|1|Z | 5S ribosomal RNA | RIBOSOMAL 5S RNA | Deinococcus radiodurans | Bacteria | RF00001 | Thiopeptide antibiotic Nosiheptide bound to the large ribosomal subunit of Deinococcus radiodurans | X-ray diffraction | 3.7 | 2008-06-17 |
| 6 | 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 |
| 7 | 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 |
| 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 | 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 |
| 10 | 4IOC|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of compound 4f bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-ray diffraction | 3.6 | 2013-03-06 |
| 11 | 3FWO|1|B | 5S ribosomal RNA | 5S RIBOSOMAL RNA | Deinococcus radiodurans | Bacteria | RF00001 | The large ribosomal subunit from Deinococcus radiodurans complexed with Methymycin | X-ray diffraction | 3.71 | 2010-01-19 |
| 12 | 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 |
| 13 | 3JQ4|1|B | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | The structure of the complex of the large ribosomal subunit from D. Radiodurans with the antibiotic lankacidin | X-ray diffraction | 3.52 | 2010-09-08 |
| 14 | 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 |
| 15 | 4U67|1|Y | 5S ribosomal RNA | 5s RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of the large ribosomal subunit (50S) of Deinococcus radiodurans containing a three residue insertion in L22 | X-ray diffraction | 3.65 | 2015-08-05 |
| 16 | 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 |
| 17 | 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 |
| 18 | 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 |
| 19 | 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 |
| 20 | 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 |
| 21 | 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 |
| 22 | 4WFN|1|Y | 5S ribosomal RNA | 5S ribosomal RNA | Deinococcus radiodurans | Bacteria | RF00001 | Crystal structure of the large ribosomal subunit (50S) of Deinococcus radiodurans containing a three residue insertion in L22 in complex with erythromycin | X-ray diffraction | 3.54 | 2015-12-23 |
Release history
| Release | 7.0 |
|---|---|
| Date | 2017-04-05 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_45748.1 | NR_4.0_11818.1 | 7.0 | (1) 5DM6|1|Y | (21) 1NKW|1|9, 1NWX|1|9, 1NWY|1|9, 1SM1|1|9, 1XBP|1|9, 1Y69|1|9, 2ZJP|1|Z, 2ZJQ|1|Y, 2ZJR|1|Y, 3CF5|1|Z, 3DLL|1|Z, 3FWO|1|B, 3JQ4|1|B, 3PIO|1|Y, 3PIP|1|Y, 4IO9|1|Y, 4IOA|1|Y, 4IOC|1|Y, 4U67|1|Y, 4WFN|1|Y, 5DM7|1|Y | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_45748.1 | NR_4.0_45748.2 | 8.0 | (22) 5DM6|1|Y, 1XBP|1|9, 3JQ4|1|B, 4WFN|1|Y, 1SM1|1|9, 3FWO|1|B, 1NWY|1|9, 3DLL|1|Z, 4U67|1|Y, 1NWX|1|9, 3CF5|1|Z, 4IOC|1|Y, 1NKW|1|9, 2ZJR|1|Y, 4IOA|1|Y, 2ZJQ|1|Y, 4IO9|1|Y, 2ZJP|1|Z, 3PIP|1|Y, 5DM7|1|Y, 1Y69|1|9, 3PIO|1|Y | (0) | (2) 5JVG|1|Y, 5JVH|1|Y |
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 | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 4U67|1|Y | Title: Crystal structure of the large ribosomal subunit (50S) of Deinococcus radiodurans containing a three residue insertion in L22 | X-RAY DIFFRACTION | 3.65 | 122 | ||
| 2 | 4WFN|1|Y | Title: Crystal structure of the large ribosomal subunit (50S) of Deinococcus radiodurans containing a three residue insertion in L22 in complex with erythromycin | X-RAY DIFFRACTION | 3.54 | 122 | ||
| 3 | 4IOC|1|Y | Title: Crystal structure of compound 4f bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.6 | 122 | ||
| 4 | 4IO9|1|Y | Title: Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.2 | 122 | ||
| 5 | 4IOA|1|Y | Title: Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.2 | 122 | ||
| 6 | 3DLL|1|Z | Title: The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning | X-RAY DIFFRACTION | 3.5 | 122 | ||
| 7 | 2ZJQ|1|Y | Title: Interaction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunit | X-RAY DIFFRACTION | 3.3 | 122 | ||
| 8 | 2ZJR|1|Y | Title: Refined native structure of the large ribosomal subunit (50S) from Deinococcus radiodurans | X-RAY DIFFRACTION | 2.91 | 122 | ||
| 9 | 3CF5|1|Z | Title: Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radiodurans | X-RAY DIFFRACTION | 3.3 | 122 | ||
| 10 | 2ZJP|1|Z | Title: Thiopeptide antibiotic Nosiheptide bound to the large ribosomal subunit of Deinococcus radiodurans | X-RAY DIFFRACTION | 3.7 | 122 | ||
| 11 | 3PIP|1|Y | Title: Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit | X-RAY DIFFRACTION | 3.45 | 120 | ||
| 12 | 3PIO|1|Y | Title: Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit | X-RAY DIFFRACTION | 3.25 | 120 | ||
| 13 | 5DM6|1|Y | Title: Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans | X-RAY DIFFRACTION | 2.9 | 122 | ||
| 14 | 5DM7|1|Y | Title: Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with hygromycin A | X-RAY DIFFRACTION | 3 | 122 | ||
| 15 | 3FWO|1|B | Title: The large ribosomal subunit from Deinococcus radiodurans complexed with Methymycin | X-RAY DIFFRACTION | 3.71 | 118 | ||
| 16 | 3JQ4|1|B | Title: The structure of the complex of the large ribosomal subunit from D. Radiodurans with the antibiotic lankacidin | X-RAY DIFFRACTION | 3.52 | 118 | ||
| 17 | 1Y69|1|9 | Title: RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans | X-RAY DIFFRACTION | 3.33 | 118 | ||
| 18 | 1XBP|1|9 | Title: 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 | ||
| 19 | 1NWX|1|9 | Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773 | X-RAY DIFFRACTION | 3.5 | 118 | ||
| 20 | 1NKW|1|9 | Title: Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans | X-RAY DIFFRACTION | 3.1 | 118 | ||
| 21 | 1NWY|1|9 | Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCIN | X-RAY DIFFRACTION | 3.3 | 118 | ||
| 22 | 1SM1|1|9 | Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN | X-RAY DIFFRACTION | 3.42 | 118 |
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