#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
35ZEG|1|A+ 5ZEG|1|B+ 5ZEG|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')synthetic constructCrystal structure of the bacterial A1408me1A-mutant ribosomal decoding siteX-ray diffraction2.42018-03-21
46JBF|1|A+ 6JBF|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')synthetic constructCrystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-ray diffraction2.62020-01-29
53TD1|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
64K32|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
75ZEI|1|A+ 5ZEI|1|BRNA (5'-R(P*GP*CP*GP*UP*CP*(1MA)P*CP*GP*UP*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3'), RNA (5'-R(P*UP*GP*CP*GP*UP*CP*(1MA)P*CP*GP*UP*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')synthetic constructCrystal structure of the bacterial A1408me1A-mutant ribosomal decoding site in complex with geneticinX-ray diffraction2.12018-03-21
83BNL|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
96JBF|1|C+ 6JBF|1|DRNA (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 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-ray diffraction2.62020-01-29
104P3S|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
112ET5|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
124PDQ|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
134GPY|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
144GPW|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
151MWL|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
162ET4|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
174GPX|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
182ESJ|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
195Z1H|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
202ESI|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
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
321YRJ|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
332F4T|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

Release3.1513.1523.1533.1543.1553.1563.1573.1583.1593.1603.1613.1623.1633.1643.1653.1663.1673.1683.1693.1703.1713.1723.1733.1743.1753.1763.1773.1783.1793.1803.1813.1823.1833.1843.1853.1863.1873.1883.1893.1903.1913.1923.1933.1943.1953.1963.1973.1983.1993.2003.2013.2023.2033.2043.2053.2063.2073.2083.2093.2103.2113.2123.2133.2143.2153.2163.2173.2183.2193.2203.221
Date2020-11-042020-11-112020-11-182020-11-252020-12-022020-12-092020-12-162020-12-232020-12-302021-01-062021-01-132021-01-202021-01-272021-02-032021-02-102021-02-172021-02-242021-03-032021-03-102021-03-172021-03-242021-03-312021-04-072021-04-142021-04-212021-04-282021-05-052021-05-122021-05-192021-05-262021-06-022021-06-092021-06-162021-06-232021-06-302021-07-072021-07-142021-07-212021-07-282021-08-042021-08-112021-08-182021-08-252021-09-012021-09-082021-09-152021-09-222021-09-292021-10-062021-10-132021-10-202021-10-272021-11-032021-11-102021-11-172021-11-242021-12-012021-12-082021-12-152021-12-222021-12-292022-01-052022-01-122022-01-192022-01-262022-02-022022-02-092022-02-162022-02-232022-03-022022-03-09

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.

#SPDBTitleMethodResolutionLength
1
5ZEG|1|A+5ZEG|1|B+5ZEG|1|C
Crystal structure of the bacterial A1408me1A-mutant ribosomal decoding siteX-RAY DIFFRACTION2.422
2
6JBF|1|C+6JBF|1|D
Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-RAY DIFFRACTION2.623
3
4PDQ|1|A+4PDQ|1|B
Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neomycin analogX-RAY DIFFRACTION323
4
3BNL|1|A+3BNL|1|B
Crystal structure of the bacterial ribosomal decoding A site in the presence of [Co(NH3)6]Cl3X-RAY DIFFRACTION2.622
5
6JBF|1|A+6JBF|1|B
Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neamine analog (axial 4'-F)X-RAY DIFFRACTION2.623
6
1MWL|1|A+1MWL|1|B
Crystal structure of geneticin bound to the eubacterial 16S rRNA A siteX-RAY DIFFRACTION2.424
7
3WRU|1|A+3WRU|1|B
Crystal structure of the bacterial ribosomal decoding site in complex with synthetic aminoglycoside with F-HABA groupX-RAY DIFFRACTION2.321
8
2ESI|1|A+2ESI|1|B
Complex between Kanamycin A and the 16S-Rrna A Site.X-RAY DIFFRACTION323
9
1LC4|1|A+1LC4|1|B
Crystal Structure of Tobramycin Bound to the Eubacterial 16S rRNA A SiteX-RAY DIFFRACTION2.5421
10
4P20|1|A+4P20|1|B
Crystal structures of the bacterial ribosomal decoding site complexed with amikacinX-RAY DIFFRACTION2.721
11
4GPY|1|A+4GPY|1|B
Crystal structure of the bacterial ribosomal decoding site in complex with 6'-hydroxysisomicinX-RAY DIFFRACTION2.822
12
5Z1H|1|B+5Z1H|1|A
Crystal structure of the bacterial ribosomal decoding site in complex with 6'-fluoro sisomicinX-RAY DIFFRACTION2.423
13
2F4T|1|B+2F4T|1|A
Asite RNA + designer antibioticX-RAY DIFFRACTION323
14
3S4P|1|A+3S4P|1|B
Crystal structure of the bacterial ribosomal decoding site complexed with an amphiphilic paromomycin O2''-ether analogueX-RAY DIFFRACTION2.5621
15
2BEE|1|A+2BEE|1|B
Complex Between Paromomycin derivative JS4 and the 16S-Rrna A SiteX-RAY DIFFRACTION2.621
16
2BE0|1|A+2BE0|1|B
Complex Between Paromomycin Derivative JS5-39 and the 16S-Rrna A-Site.X-RAY DIFFRACTION2.6321
17
2PWT|1|A+2PWT|1|B
Crystal structure of the bacterial ribosomal decoding site complexed with aminoglycoside containing the L-HABA groupX-RAY DIFFRACTION1.821
18
1YRJ|1|A+1YRJ|1|B
Crystal Structure of Apramycin bound to a Ribosomal RNA A site oligonucleotideX-RAY DIFFRACTION2.723
19
2ESJ|1|A+2ESJ|1|B
Complex between Lividomycin A and the 16S-Rrna A SiteX-RAY DIFFRACTION2.221
20
2ET5|1|A+2ET5|1|B
Complex Between Ribostamycin and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.221
21
2ET4|1|A+2ET4|1|B
Complex Between Neomycin B and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.421
22
1J7T|1|A+1J7T|1|B
Complex between Paromomycin and the 16S-rRNA A-site at 2.5 A resolutionX-RAY DIFFRACTION2.521
23
2ET3|1|A+2ET3|1|B
Complex Between Gentamicin C1A and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.821
24
4F8V|1|A+4F8V|1|B
Crystal structure of the bacterial ribosomal decoding site in complex with sisomicin (P21212 form)X-RAY DIFFRACTION2.821
25
4F8U|1|A+4F8U|1|B
Crystal structure of the bacterial ribosomal decoding site in complex with sisomicin (C2 form)X-RAY DIFFRACTION222
26
5Z1I|1|A
Crystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-fluoro sisomicinX-RAY DIFFRACTION1.921
27
3TD1|1|B+3TD1|1|A
Crystal structure of the bacterial A1408G-mutant and the protozoa cytoplasmic ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.122
28
4P3S|1|B+4P3S|1|A
Crystal structure of the bacterial A1408C-mutant ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.321
29
5ZEI|1|A+5ZEI|1|B
Crystal structure of the bacterial A1408me1A-mutant ribosomal decoding site in complex with geneticinX-RAY DIFFRACTION2.121
30
4GPX|1|A+4GPX|1|B
Crystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-hydroxysisomicin (P212121 form)X-RAY DIFFRACTION2.621
31
4GPW|1|A+4GPW|1|B
Crystal structure of the protozoal cytoplasmic ribosomal decoding site in complex with 6'-hydroxysisomicin (P21212 form)X-RAY DIFFRACTION322
32
4K32|1|A+4K32|1|B
Crystal structure of geneticin bound to the leishmanial rRNA A-siteX-RAY DIFFRACTION2.521
33
5Z71|1|B+5Z71|1|A
Crystal structure of the Homo Sapiens cytoplasmic ribosomal decoding site in complex with G418 (P21212 form)X-RAY DIFFRACTION2.522

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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