BGSU RNA Site //

Equivalence class NR_2.5_97151.3 Obsolete

#IFEStandardized nameMoleculeOrganismDomainRfamTitleMethodÅDate
15Z1I|1|A (rep)RNA (5'-R(P*GP*CP*GP*UP*CP*GP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')synthetic constructSyntheticCrystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-fluoro sisomicinX-ray diffraction1.92018-05-30
22PWT|1|A+ 2PWT|1|B22-mer of the ribosomal decoding siteCrystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA groupX-ray diffraction1.82007-09-18
33TD1|1|B+ 3TD1|1|ARNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*GP*(5BU)P*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')Crystal structure of the bacterial A1408G-mutant and the protozoa cytoplasmic ribosomal decoding site in complex with geneticinX-ray diffraction2.12011-12-07
44K32|1|A+ 4K32|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*UP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3')LeishmaniaEukaryaCrystal structure of geneticin bound to the leishmanial rRNA A-siteX-ray diffraction2.52013-07-31
54P3S|1|B+ 4P3S|1|A5'-R(*UP*UP*GP*CP*GP*UP*CP*CP*CP*GP*(5BU)P*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3'synthetic constructSyntheticCrystal structure of the bacterial A1408C-mutant ribosomal decoding site in complex with geneticinX-ray diffraction2.32016-05-04
62ET5|1|A+ 2ET5|1|B5'-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-SiteX-ray diffraction2.22005-12-13
74WCP|1|A+ 4WCP|1|B+ 4WCP|1|CRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*(1MA)P*CP*GP*UP*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')Crystal structure of the bacterial A1408me1A-mutant ribosomal decoding siteX-ray diffraction2.42015-09-09
81MWL|1|A+ 1MWL|1|B5'-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 siteX-ray diffraction2.42003-02-18
92ET4|1|A+ 2ET4|1|B5'-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-SiteX-ray diffraction2.42005-12-13
102ESJ|1|A+ 2ESJ|1|B5'-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 SiteX-ray diffraction2.22005-12-20
115Z1H|1|B+ 5Z1H|1|ARNA (5'-R(*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 constructSyntheticCrystal structure of the bacterial ribosomal decoding site in complex with 6'-fluoro sisomicinX-ray diffraction2.42018-05-30
124WCQ|1|A+ 4WCQ|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*(1MA)P*CP*GP*UP*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')Crystal structure of the bacterial A1408me1A-mutant ribosomal decoding site in complex with geneticinX-ray diffraction2.12015-09-09
133WRU|1|A+ 3WRU|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')Crystal structure of the bacterial ribosomal decoding site in complex with synthetic aminoglycoside with F-HABA groupX-ray diffraction2.32014-11-05
144F8U|1|A+ 4F8U|1|BRNA (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 diffraction22012-08-15
155Z71|1|B+ 5Z71|1|ARNA (5'-R(P*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3')synthetic constructSyntheticCrystal structure of the Homo Sapiens cytoplasmic ribosomal decoding site in complex with G418 (P21212 form)X-ray diffraction2.52019-01-30
161J7T|1|A+ 1J7T|1|B5'-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 resolutionX-ray diffraction2.52002-05-18

Release history

Release3.593.603.613.623.633.643.653.663.673.683.693.703.713.723.733.74
Date2019-02-012019-02-082019-02-152019-02-222019-03-012019-03-082019-03-152019-03-222019-03-292019-04-052019-04-122019-04-192019-04-262019-05-032019-05-102019-05-17

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_2.5_97151.3NR_2.5_19598.33.59(2) 5Z1I|1|A, 5Z1H|1|B+5Z1H|1|A(14) 4WCQ|1|A+4WCQ|1|B, 4P3S|1|B+4P3S|1|A, 1J7T|1|A+1J7T|1|B, 2PWT|1|A+2PWT|1|B, 2ET4|1|A+2ET4|1|B, 4K32|1|A+4K32|1|B, 3WRU|1|A+3WRU|1|B, 2ESJ|1|A+2ESJ|1|B, 4WCP|1|A+4WCP|1|B+4WCP|1|C, 2ET5|1|A+2ET5|1|B, 5Z71|1|B+5Z71|1|A, 3TD1|1|B+3TD1|1|A, 4F8U|1|A+4F8U|1|B, 1MWL|1|A+1MWL|1|B(2) 5ZEG|1|A+5ZEG|1|B+5ZEG|1|C, 5ZEI|1|A+5ZEI|1|B
NR_2.5_97151.3NR_2.5_97151.23.59(13) 4K32|1|A+4K32|1|B, 1MWL|1|A+1MWL|1|B, 4WCQ|1|A+4WCQ|1|B, 2ET5|1|A+2ET5|1|B, 3WRU|1|A+3WRU|1|B, 1J7T|1|A+1J7T|1|B, 4P3S|1|B+4P3S|1|A, 2ET4|1|A+2ET4|1|B, 3TD1|1|B+3TD1|1|A, 2ESJ|1|A+2ESJ|1|B, 2PWT|1|A+2PWT|1|B, 4F8U|1|A+4F8U|1|B, 4WCP|1|A+4WCP|1|B+4WCP|1|C(3) 5Z1I|1|A, 5Z71|1|B+5Z71|1|A, 5Z1H|1|B+5Z1H|1|A(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_2.5_97151.3NR_2.5_71199.13.75(16) 2ESJ|1|A+2ESJ|1|B, 4P3S|1|B+4P3S|1|A, 1MWL|1|A+1MWL|1|B, 4K32|1|A+4K32|1|B, 1J7T|1|A+1J7T|1|B, 4F8U|1|A+4F8U|1|B, 3WRU|1|A+3WRU|1|B, 5Z71|1|B+5Z71|1|A, 3TD1|1|B+3TD1|1|A, 5Z1I|1|A, 2PWT|1|A+2PWT|1|B, 5Z1H|1|B+5Z1H|1|A, 2ET5|1|A+2ET5|1|B, 4WCQ|1|A+4WCQ|1|B, 2ET4|1|A+2ET4|1|B, 4WCP|1|A+4WCP|1|B+4WCP|1|C(0) (2) 5ZEI|1|A+5ZEI|1|B, 5ZEG|1|A+5ZEG|1|B+5ZEG|1|C

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).
#SPDBTitleMethodResolutionLength
14WCP|1|A+4WCP|1|B+4WCP|1|CCrystal structure of the bacterial A1408me1A-mutant ribosomal decoding siteX-RAY DIFFRACTION2.422
23TD1|1|B+3TD1|1|ACrystal structure of the bacterial A1408G-mutant and the protozoa cytoplasmic ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.122
34WCQ|1|A+4WCQ|1|BCrystal structure of the bacterial A1408me1A-mutant ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.121
44P3S|1|B+4P3S|1|ACrystal structure of the bacterial A1408C-mutant ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.321
55Z1H|1|B+5Z1H|1|ACrystal structure of the bacterial ribosomal decoding site in complex with 6'-fluoro sisomicinX-RAY DIFFRACTION2.423
62PWT|1|A+2PWT|1|BCrystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA groupX-RAY DIFFRACTION1.821
72ET5|1|A+2ET5|1|BComplex Between Ribostamycin and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.221
82ET4|1|A+2ET4|1|BComplex Between Neomycin B and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.421
91J7T|1|A+1J7T|1|BComplex between Paromomycin and the 16S-rRNA A-site at 2.5 A resolutionX-RAY DIFFRACTION2.521
102ESJ|1|A+2ESJ|1|BComplex between Lividomycin A and the 16S-Rrna A SiteX-RAY DIFFRACTION2.221
113WRU|1|A+3WRU|1|BCrystal structure of the bacterial ribosomal decoding site in complex with synthetic aminoglycoside with F-HABA groupX-RAY DIFFRACTION2.321
121MWL|1|A+1MWL|1|BCrystal structure of geneticin bound to the eubacterial 16S rRNA A siteX-RAY DIFFRACTION2.424
134F8U|1|A+4F8U|1|BCrystal structure of the bacterial ribosomal decoding site in complex with sisomicin (C2 form)X-RAY DIFFRACTION222
145Z1I|1|ACrystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-fluoro sisomicinX-RAY DIFFRACTION1.921
155Z71|1|B+5Z71|1|ACrystal structure of the Homo Sapiens cytoplasmic ribosomal decoding site in complex with G418 (P21212 form)X-RAY DIFFRACTION2.522
164K32|1|A+4K32|1|BCrystal structure of geneticin bound to the leishmanial rRNA A-siteX-RAY DIFFRACTION2.521