Equivalence class NR_4.0_96165.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2PWT|1|A+ 2PWT|1|B (rep) | 22-mer of the ribosomal decoding site | Crystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA group | X-ray diffraction | 1.8 | 2007-09-18 | ||||
| 2 | 1MWL|1|A+ 1MWL|1|B | 5'-R(*CP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3' | Crystal structure of geneticin bound to the eubacterial 16S rRNA A site | X-ray diffraction | 2.4 | 2003-02-18 | ||||
| 3 | 5BWS|1|A+ 5BWS|1|B | RNA (5'-D(*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3') | synthetic construct | Synthetic | Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F) | X-ray diffraction | 2.6 | 2016-06-22 | ||
| 4 | 4PDQ|1|A+ 4PDQ|1|B | RNA (5'-*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C-3') | synthetic construct | Synthetic | Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neomycin analog | X-ray diffraction | 3 | 2015-01-07 |
Release history
| Release | 6.0 |
|---|---|
| Date | 2017-04-04 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_96165.1 | NR_4.0_25640.1 | 6.0 | (1) 5BWS|1|A+5BWS|1|B | (3) 2PWT|1|A+2PWT|1|B, 1MWL|1|A+1MWL|1|B, 4PDQ|1|A+4PDQ|1|B | (4) 5BXK|1|A+5BXK|1|B, 5BWS|1|C+5BWS|1|D, 4WCP|1|A+4WCP|1|B+4WCP|1|C, 5BXK|1|C+5BXK|1|D |
| NR_4.0_96165.1 | NR_4.0_62422.1 | 6.0 | (1) 2PWT|1|A+2PWT|1|B | (3) 4PDQ|1|A+4PDQ|1|B, 1MWL|1|A+1MWL|1|B, 5BWS|1|A+5BWS|1|B | (2) 4F8V|1|A+4F8V|1|B, 3S4P|1|A+3S4P|1|B |
| NR_4.0_96165.1 | NR_4.0_70990.1 | 6.0 | (1) 4PDQ|1|A+4PDQ|1|B | (3) 5BWS|1|A+5BWS|1|B, 2PWT|1|A+2PWT|1|B, 1MWL|1|A+1MWL|1|B | (0) |
| NR_4.0_96165.1 | NR_4.0_95067.1 | 6.0 | (1) 1MWL|1|A+1MWL|1|B | (3) 4PDQ|1|A+4PDQ|1|B, 5BWS|1|A+5BWS|1|B, 2PWT|1|A+2PWT|1|B | (8) 1J7T|1|A+1J7T|1|B, 2BE0|1|A+2BE0|1|B, 2ESJ|1|A+2ESJ|1|B, 2ET3|1|A+2ET3|1|B, 2ET4|1|A+2ET4|1|B, 4F8U|1|A+4F8U|1|B, 2BEE|1|A+2BEE|1|B, 2ET5|1|A+2ET5|1|B |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_96165.1 | NR_4.0_51110.1 | 7.0 | (4) 5BWS|1|A+5BWS|1|B, 2PWT|1|A+2PWT|1|B, 4PDQ|1|A+4PDQ|1|B, 1MWL|1|A+1MWL|1|B | (0) | (30) 5BXK|1|C+5BXK|1|D, 2ET5|1|A+2ET5|1|B, 4WCR|1|A+4WCR|1|B, 3BNL|1|A+3BNL|1|B, 5BWS|1|C+5BWS|1|D, 2ET3|1|A+2ET3|1|B, 3TD1|1|B+3TD1|1|A, 4WCP|1|A+4WCP|1|B+4WCP|1|C, 5BXK|1|A+5BXK|1|B, 2ET4|1|A+2ET4|1|B, 4WCQ|1|A+4WCQ|1|B, 2F4T|1|B+2F4T|1|A, 4WCS|1|A+4WCS|1|B, 2ESJ|1|A+2ESJ|1|B, 3S4P|1|A+3S4P|1|B, 4P3S|1|B+4P3S|1|A, 2ESI|1|A+2ESI|1|B, 4P20|1|A+4P20|1|B, 2BEE|1|A+2BEE|1|B, 4K32|1|A+4K32|1|B, 2BE0|1|A+2BE0|1|B, 4GPY|1|A+4GPY|1|B, 1YRJ|1|A+1YRJ|1|B, 4GPX|1|A+4GPX|1|B, 1LC4|1|A+1LC4|1|B, 4GPW|1|A+4GPW|1|B, 1J7T|1|A+1J7T|1|B, 4F8V|1|A+4F8V|1|B, 4F8U|1|A+4F8U|1|B, 3WRU|1|A+3WRU|1|B |
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 | 5BWS|1|A+5BWS|1|B | Title: Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F) | X-RAY DIFFRACTION | 2.6 | 23 | ||
| 2 | 2PWT|1|A+2PWT|1|B | Title: Crystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA group | X-RAY DIFFRACTION | 1.8 | 21 | ||
| 3 | 1MWL|1|A+1MWL|1|B | Title: Crystal structure of geneticin bound to the eubacterial 16S rRNA A site | X-RAY DIFFRACTION | 2.4 | 24 | ||
| 4 | 4PDQ|1|A+4PDQ|1|B | Title: Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neomycin analog | X-RAY DIFFRACTION | 3 | 23 |
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