Equivalence class NR_4.0_95067.1 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1MWL|1|A+ 1MWL|1|B (rep) | 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 | ||||
| 2 | 4F8U|1|A+ 4F8U|1|B | RNA (5'-R(P*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3'), RNA (5'-R(P*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 the bacterial ribosomal decoding site in complex with sisomicin (C2 form) | X-ray diffraction | 2 | 2012-08-15 | ||||
| 3 | 2BEE|1|A+ 2BEE|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' | Complex Between Paromomycin derivative JS4 and the 16S-Rrna A Site | X-ray diffraction | 2.6 | 2005-12-20 | ||||
| 4 | 2ESJ|1|A+ 2ESJ|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' | Complex between Lividomycin A and the 16S-Rrna A Site | X-ray diffraction | 2.2 | 2005-12-20 | ||||
| 5 | 2ET4|1|A+ 2ET4|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' | Complex Between Neomycin B and the 16S-RRNA A-Site | X-ray diffraction | 2.4 | 2005-12-13 | ||||
| 6 | 1J7T|1|A+ 1J7T|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' | Complex between Paromomycin and the 16S-rRNA A-site at 2.5 A resolution | X-ray diffraction | 2.5 | 2002-05-18 | ||||
| 7 | 2ET5|1|A+ 2ET5|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' | Complex Between Ribostamycin and the 16S-RRNA A-Site | X-ray diffraction | 2.2 | 2005-12-13 | ||||
| 8 | 2BE0|1|A+ 2BE0|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' | Complex Between Paromomycin Derivative JS5-39 and the 16S-Rrna A-Site. | X-ray diffraction | 2.63 | 2005-12-20 | ||||
| 9 | 2ET3|1|A+ 2ET3|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' | Complex Between Gentamicin C1A and the 16S-RRNA A-Site | X-ray diffraction | 2.8 | 2005-12-13 |
Release history
| Release | 5.0 |
|---|---|
| Date | 2016-07-25 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_95067.1 | NR_all_33766.1 | 5.0 | (9) 2ESJ|1|A+2ESJ|1|B, 2BEE|1|A+2BEE|1|B, 4F8U|1|A+4F8U|1|B, 2BE0|1|A+2BE0|1|B, 2ET5|1|A+2ET5|1|B, 1MWL|1|A+1MWL|1|B, 2ET4|1|A+2ET4|1|B, 1J7T|1|A+1J7T|1|B, 2ET3|1|A+2ET3|1|B | (0) | (5) 1O9M|1|A+1O9M|1|B, 3BNL|1|A+3BNL|1|B, 3BNT|1|A, 2ET8|1|A+2ET8|1|B, 3BNP|1|A+3BNP|1|B |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_4.0_95067.1 | NR_4.0_96165.1 | 6.0 | (1) 1MWL|1|A+1MWL|1|B | (8) 1J7T|1|A+1J7T|1|B, 2BE0|1|A+2BE0|1|B, 2BEE|1|A+2BEE|1|B, 2ESJ|1|A+2ESJ|1|B, 2ET3|1|A+2ET3|1|B, 2ET4|1|A+2ET4|1|B, 2ET5|1|A+2ET5|1|B, 4F8U|1|A+4F8U|1|B | (3) 2PWT|1|A+2PWT|1|B, 4PDQ|1|A+4PDQ|1|B, 5BWS|1|A+5BWS|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 | 2BE0|1|A+2BE0|1|B | Title: Complex Between Paromomycin Derivative JS5-39 and the 16S-Rrna A-Site. | X-RAY DIFFRACTION | 2.63 | 21 | ||
| 2 | 2BEE|1|A+2BEE|1|B | Title: Complex Between Paromomycin derivative JS4 and the 16S-Rrna A Site | X-RAY DIFFRACTION | 2.6 | 21 | ||
| 3 | 2ESJ|1|A+2ESJ|1|B | Title: Complex between Lividomycin A and the 16S-Rrna A Site | X-RAY DIFFRACTION | 2.2 | 21 | ||
| 4 | 2ET5|1|A+2ET5|1|B | Title: Complex Between Ribostamycin and the 16S-RRNA A-Site | X-RAY DIFFRACTION | 2.2 | 21 | ||
| 5 | 2ET4|1|A+2ET4|1|B | Title: Complex Between Neomycin B and the 16S-RRNA A-Site | X-RAY DIFFRACTION | 2.4 | 21 | ||
| 6 | 1J7T|1|A+1J7T|1|B | Title: Complex between Paromomycin and the 16S-rRNA A-site at 2.5 A resolution | X-RAY DIFFRACTION | 2.5 | 21 | ||
| 7 | 2ET3|1|A+2ET3|1|B | Title: Complex Between Gentamicin C1A and the 16S-RRNA A-Site | X-RAY DIFFRACTION | 2.8 | 21 | ||
| 8 | 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 | ||
| 9 | 4F8U|1|A+4F8U|1|B | Title: Crystal structure of the bacterial ribosomal decoding site in complex with sisomicin (C2 form) | X-RAY DIFFRACTION | 2 | 22 |
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