#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
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 constructCrystal 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
35BWS|1|A+ 5BWS|1|BRNA (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')Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-ray diffraction2.62016-06-22
43TD1|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
54K32|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')LeishmaniaCrystal structure of geneticin bound to the leishmanial rRNA A-siteX-ray diffraction2.52013-07-31
65BWS|1|C+ 5BWS|1|DRNA (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')Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-ray diffraction2.62016-06-22
73BNL|1|A+ 3BNL|1|BA site of bacterial ribosomeCrystal structure of the bacterial ribosomal decoding A site in the presence of [Co(NH3)6]Cl3X-ray diffraction2.62008-06-24
84P3S|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 constructCrystal structure of the bacterial A1408C-mutant ribosomal decoding site in complex with geneticinX-ray diffraction2.32016-05-04
92ET5|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
104PDQ|1|A+ 4PDQ|1|BRNA (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 constructCrystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neomycin analogX-ray diffraction32015-01-07
114GPY|1|A+ 4GPY|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 6'-hydroxysisomicinX-ray diffraction2.82013-04-03
124WCP|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
134GPW|1|A+ 4GPW|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')Crystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-hydroxysisomicin (P21212 form)X-ray diffraction32013-04-03
141MWL|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
152ET4|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
164GPX|1|A+ 4GPX|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*GP*CP*CP*GP*GP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')Crystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-hydroxysisomicin (P212121 form)X-ray diffraction2.62013-04-03
172ESJ|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
185Z1H|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 constructCrystal structure of the bacterial ribosomal decoding site in complex with 6'-fluoro sisomicinX-ray diffraction2.42018-05-30
192ESI|1|A+ 2ESI|1|B5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3'Complex between Kanamycin A and the 16S-Rrna A Site.X-ray diffraction32005-12-20
204WCQ|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
214F8V|1|A+ 4F8V|1|BRNA (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 (P21212 form)X-ray diffraction2.82012-08-15
223WRU|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
234F8U|1|A+ 4F8U|1|BRNA (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'), 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')Crystal structure of the bacterial ribosomal decoding site in complex with sisomicin (C2 form)X-ray diffraction22012-08-15
243S4P|1|A+ 3S4P|1|BRNA (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 complexed with an amphiphilic paromomycin O2''-ether analogueX-ray diffraction2.562011-09-21
254P20|1|A+ 4P20|1|B5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3'synthetic constructCrystal structures of the bacterial ribosomal decoding site complexed with amikacinX-ray diffraction2.72014-05-07
261LC4|1|A+ 1LC4|1|B5'-R(*UP*UP*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 Tobramycin Bound to the Eubacterial 16S rRNA A SiteX-ray diffraction2.542003-04-08
272ET3|1|A+ 2ET3|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 Gentamicin C1A and the 16S-RRNA A-SiteX-ray diffraction2.82005-12-13
285Z71|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 constructCrystal structure of the Homo Sapiens cytoplasmic ribosomal decoding site in complex with G418 (P21212 form)X-ray diffraction2.52019-01-30
292BE0|1|A+ 2BE0|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 Derivative JS5-39 and the 16S-Rrna A-Site.X-ray diffraction2.632005-12-20
302BEE|1|A+ 2BEE|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 derivative JS4 and the 16S-Rrna A SiteX-ray diffraction2.62005-12-20
311J7T|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
322G5Q|1|A+ 2G5Q|1|B5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3'Crystal structures of the bacterial ribosomal decoding site complexed with amikacin.X-ray diffraction2.72006-10-03
331YRJ|1|A+ 1YRJ|1|BBacterial 16 S Ribosomal RNA A Site OligonucleotideCrystal Structure of Apramycin bound to a Ribosomal RNA A site oligonucleotideX-ray diffraction2.72005-06-07
342F4T|1|B+ 2F4T|1|A5'-R(*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3', 5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3'Asite RNA + designer antibioticX-ray diffraction32006-05-02

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_3.0_97151.3NR_3.0_19598.33.59(2) 5Z1H|1|B+5Z1H|1|A, 5Z1I|1|A(32) 1J7T|1|A+1J7T|1|B, 1LC4|1|A+1LC4|1|B, 1MWL|1|A+1MWL|1|B, 1YRJ|1|A+1YRJ|1|B, 2BE0|1|A+2BE0|1|B, 2BEE|1|A+2BEE|1|B, 2ESI|1|A+2ESI|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, 2F4T|1|B+2F4T|1|A, 2G5Q|1|A+2G5Q|1|B, 2PWT|1|A+2PWT|1|B, 3BNL|1|A+3BNL|1|B, 3S4P|1|A+3S4P|1|B, 3TD1|1|B+3TD1|1|A, 3WRU|1|A+3WRU|1|B, 4F8U|1|A+4F8U|1|B, 4F8V|1|A+4F8V|1|B, 4GPW|1|A+4GPW|1|B, 4GPX|1|A+4GPX|1|B, 4GPY|1|A+4GPY|1|B, 4K32|1|A+4K32|1|B, 4P20|1|A+4P20|1|B, 4P3S|1|B+4P3S|1|A, 4PDQ|1|A+4PDQ|1|B, 4WCP|1|A+4WCP|1|B+4WCP|1|C, 4WCQ|1|A+4WCQ|1|B, 5BWS|1|A+5BWS|1|B, 5BWS|1|C+5BWS|1|D, 5Z71|1|B+5Z71|1|A(2) 5ZEG|1|A+5ZEG|1|B+5ZEG|1|C, 5ZEI|1|A+5ZEI|1|B
NR_3.0_97151.3NR_3.0_97151.23.59(31) 1J7T|1|A+1J7T|1|B, 1LC4|1|A+1LC4|1|B, 1MWL|1|A+1MWL|1|B, 1YRJ|1|A+1YRJ|1|B, 2BE0|1|A+2BE0|1|B, 2BEE|1|A+2BEE|1|B, 2ESI|1|A+2ESI|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, 2F4T|1|B+2F4T|1|A, 2G5Q|1|A+2G5Q|1|B, 2PWT|1|A+2PWT|1|B, 3BNL|1|A+3BNL|1|B, 3S4P|1|A+3S4P|1|B, 3TD1|1|B+3TD1|1|A, 3WRU|1|A+3WRU|1|B, 4F8U|1|A+4F8U|1|B, 4F8V|1|A+4F8V|1|B, 4GPW|1|A+4GPW|1|B, 4GPX|1|A+4GPX|1|B, 4GPY|1|A+4GPY|1|B, 4K32|1|A+4K32|1|B, 4P20|1|A+4P20|1|B, 4P3S|1|B+4P3S|1|A, 4PDQ|1|A+4PDQ|1|B, 4WCP|1|A+4WCP|1|B+4WCP|1|C, 4WCQ|1|A+4WCQ|1|B, 5BWS|1|A+5BWS|1|B, 5BWS|1|C+5BWS|1|D(3) 5Z1H|1|B+5Z1H|1|A, 5Z1I|1|A, 5Z71|1|B+5Z71|1|A(0)

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. Large structures are slow to display; this tool is not designed for that.

#SViewPDBTitleMethodResolutionLength
15Z1I|1|ACrystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-fluoro sisomicinX-RAY DIFFRACTION1.921
25Z71|1|B+ 5Z71|1|ACrystal structure of the Homo Sapiens cytoplasmic ribosomal decoding site in complex with G418 (P21212 form)X-RAY DIFFRACTION2.522
34K32|1|A+ 4K32|1|BCrystal structure of geneticin bound to the leishmanial rRNA A-siteX-RAY DIFFRACTION2.521
44GPW|1|A+ 4GPW|1|BCrystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-hydroxysisomicin (P21212 form)X-RAY DIFFRACTION322
54GPX|1|A+ 4GPX|1|BCrystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-hydroxysisomicin (P212121 form)X-RAY DIFFRACTION2.621
64F8U|1|A+ 4F8U|1|BCrystal structure of the bacterial ribosomal decoding site in complex with sisomicin (C2 form)X-RAY DIFFRACTION222
71MWL|1|A+ 1MWL|1|BCrystal structure of geneticin bound to the eubacterial 16S rRNA A siteX-RAY DIFFRACTION2.424
83WRU|1|A+ 3WRU|1|BCrystal structure of the bacterial ribosomal decoding site in complex with synthetic aminoglycoside with F-HABA groupX-RAY DIFFRACTION2.321
94P20|1|A+ 4P20|1|BCrystal structures of the bacterial ribosomal decoding site complexed with amikacinX-RAY DIFFRACTION2.721
102G5Q|1|A+ 2G5Q|1|BCrystal structures of the bacterial ribosomal decoding site complexed with amikacin.X-RAY DIFFRACTION2.721
111LC4|1|A+ 1LC4|1|BCrystal Structure of Tobramycin Bound to the Eubacterial 16S rRNA A SiteX-RAY DIFFRACTION2.5421
122ESI|1|A+ 2ESI|1|BComplex between Kanamycin A and the 16S-Rrna A Site.X-RAY DIFFRACTION323
134F8V|1|A+ 4F8V|1|BCrystal structure of the bacterial ribosomal decoding site in complex with sisomicin (P21212 form)X-RAY DIFFRACTION2.821
142ET3|1|A+ 2ET3|1|BComplex Between Gentamicin C1A and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.821
152ET4|1|A+ 2ET4|1|BComplex Between Neomycin B and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.421
161J7T|1|A+ 1J7T|1|BComplex between Paromomycin and the 16S-rRNA A-site at 2.5 A resolutionX-RAY DIFFRACTION2.521
172ET5|1|A+ 2ET5|1|BComplex Between Ribostamycin and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.221
182ESJ|1|A+ 2ESJ|1|BComplex between Lividomycin A and the 16S-Rrna A SiteX-RAY DIFFRACTION2.221
191YRJ|1|A+ 1YRJ|1|BCrystal Structure of Apramycin bound to a Ribosomal RNA A site oligonucleotideX-RAY DIFFRACTION2.723
202PWT|1|A+ 2PWT|1|BCrystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA groupX-RAY DIFFRACTION1.821
212BE0|1|A+ 2BE0|1|BComplex Between Paromomycin Derivative JS5-39 and the 16S-Rrna A-Site.X-RAY DIFFRACTION2.6321
222BEE|1|A+ 2BEE|1|BComplex Between Paromomycin derivative JS4 and the 16S-Rrna A SiteX-RAY DIFFRACTION2.621
233S4P|1|A+ 3S4P|1|BCrystal structure of the bacterial ribosomal decoding site complexed with an amphiphilic paromomycin O2''-ether analogueX-RAY DIFFRACTION2.5621
242F4T|1|B+ 2F4T|1|AAsite RNA + designer antibioticX-RAY DIFFRACTION323
255Z1H|1|B+ 5Z1H|1|ACrystal structure of the bacterial ribosomal decoding site in complex with 6'-fluoro sisomicinX-RAY DIFFRACTION2.423
265BWS|1|C+ 5BWS|1|DCrystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-RAY DIFFRACTION2.623
273BNL|1|A+ 3BNL|1|BCrystal structure of the bacterial ribosomal decoding A site in the presence of [Co(NH3)6]Cl3X-RAY DIFFRACTION2.622
285BWS|1|A+ 5BWS|1|BCrystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-RAY DIFFRACTION2.623
294P3S|1|B+ 4P3S|1|ACrystal structure of the bacterial A1408C-mutant ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.321
304GPY|1|A+ 4GPY|1|BCrystal structure of the bacterial ribosomal decoding site in complex with 6'-hydroxysisomicinX-RAY DIFFRACTION2.822
314WCQ|1|A+ 4WCQ|1|BCrystal structure of the bacterial A1408me1A-mutant ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.121
323TD1|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
334WCP|1|A+ 4WCP|1|B+ 4WCP|1|CCrystal structure of the bacterial A1408me1A-mutant ribosomal decoding siteX-RAY DIFFRACTION2.422
344PDQ|1|A+ 4PDQ|1|BCrystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neomycin analogX-RAY DIFFRACTION323

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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