RNA 3D Hub //

Equivalence class NR_4.0_27927.1 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
13BNL|1|A+ 3BNL|1|B (rep)A 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
21MWL|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
34F8U|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
43BNP|1|A+ 3BNP|1|BA site of human mitochondrial ribosome, A chain, A site of human mitochondrial ribosome, B chainCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant)X-ray diffraction2.72008-06-24
52ET4|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
62ET3|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
72ESJ|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
82ET8|1|A+ 2ET8|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 Neamine and the 16S-RRNA A-SiteX-ray diffraction2.52005-12-13
91J7T|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
102ET5|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
113BNT|1|AA site of human mitochondrial ribosomeCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site in the Presence of [Co(NH3)6]Cl3 (A1555G mutant, Br-derivative)X-ray diffraction2.32008-06-24
122BE0|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
131O9M|1|A+ 1O9M|1|BEUBACTERIAL A-SITEEscherichia coliThe Complex of a novel antibiotic with the Aminoacyl Site of the Bacterial Ribosome Revealed by X-Ray Crystallography.X-ray diffraction2.42003-03-27
142BEE|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

Release history

Release2.02.12.22.32.42.52.62.72.82.92.102.112.122.132.142.152.162.172.182.192.202.212.222.232.242.252.262.272.282.292.302.312.322.332.342.352.362.372.382.392.402.412.422.432.442.452.462.472.482.492.502.512.522.532.542.552.562.572.582.592.602.612.622.632.642.652.662.672.682.692.702.712.722.732.742.752.762.772.782.792.802.812.822.832.842.852.862.872.882.892.902.912.92
Date2014-12-052014-12-122014-12-192014-12-262015-01-022015-01-092015-01-162015-01-232015-01-302015-02-062015-02-132015-02-202015-02-272015-03-062015-03-132015-03-202015-03-272015-04-032015-04-102015-04-172015-04-242015-05-012015-05-082015-05-152015-05-222015-05-292015-06-052015-06-122015-06-192015-06-262015-07-032015-07-102015-07-172015-07-242015-07-312015-08-072015-08-142015-08-212015-08-282015-09-042015-09-112015-09-182015-09-252015-10-022015-10-092015-10-162015-10-232015-10-302015-11-062015-11-132015-11-202015-11-272015-12-042015-12-112015-12-182015-12-252016-01-012016-01-082016-01-152016-01-222016-01-292016-02-052016-02-122016-02-192016-02-262016-03-042016-03-112016-03-182016-03-252016-04-012016-04-082016-04-152016-04-222016-04-292016-05-062016-05-132016-05-202016-05-272016-06-032016-06-102016-06-172016-06-242016-07-012016-07-082016-07-152016-07-222016-07-292016-08-052016-08-122016-08-192016-08-262016-09-022016-09-09

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_4.0_27927.1NR_4.0_21191.12.93(1) 3BNT|1|A(13) 1J7T|1|A+1J7T|1|B, 1MWL|1|A+1MWL|1|B, 1O9M|1|A+1O9M|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, 2ET8|1|A+2ET8|1|B, 3BNL|1|A+3BNL|1|B, 3BNP|1|A+3BNP|1|B, 4F8U|1|A+4F8U|1|B(0)
NR_4.0_27927.1NR_4.0_46403.12.93(1) 3BNP|1|A+3BNP|1|B(13) 1J7T|1|A+1J7T|1|B, 1MWL|1|A+1MWL|1|B, 1O9M|1|A+1O9M|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, 2ET8|1|A+2ET8|1|B, 3BNL|1|A+3BNL|1|B, 3BNT|1|A, 4F8U|1|A+4F8U|1|B(4) 3BNN|1|A+3BNN|1|B, 3BNN|1|C+3BNN|1|D, 3BNO|1|A+3BNO|1|B, 3BNO|1|C+3BNO|1|D
NR_4.0_27927.1NR_4.0_52295.12.93(2) 1O9M|1|A+1O9M|1|B, 2ET8|1|A+2ET8|1|B(12) 1J7T|1|A+1J7T|1|B, 1MWL|1|A+1MWL|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, 3BNL|1|A+3BNL|1|B, 3BNP|1|A+3BNP|1|B, 3BNT|1|A, 4F8U|1|A+4F8U|1|B(1) 2F4U|1|A+2F4U|1|B
NR_4.0_27927.1NR_4.0_97151.12.93(10) 1J7T|1|A+1J7T|1|B, 1MWL|1|A+1MWL|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, 3BNL|1|A+3BNL|1|B, 4F8U|1|A+4F8U|1|B(4) 1O9M|1|A+1O9M|1|B, 2ET8|1|A+2ET8|1|B, 3BNP|1|A+3BNP|1|B, 3BNT|1|A(24) 1LC4|1|A+1LC4|1|B, 1YRJ|1|A+1YRJ|1|B, 2ESI|1|A+2ESI|1|B, 2F4T|1|B+2F4T|1|A, 2PWT|1|A+2PWT|1|B, 3S4P|1|A+3S4P|1|B, 3TD1|1|B+3TD1|1|A, 3WRU|1|A+3WRU|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, 4WCR|1|A+4WCR|1|B, 4WCS|1|A+4WCS|1|B, 5BWS|1|A+5BWS|1|B, 5BWS|1|C+5BWS|1|D, 5BXK|1|A+5BXK|1|B, 5BXK|1|C+5BXK|1|D

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
11O9M|1|A+ 1O9M|1|BThe Complex of a novel antibiotic with the Aminoacyl Site of the Bacterial Ribosome Revealed by X-Ray Crystallography.X-RAY DIFFRACTION2.421
22ET8|1|A+ 2ET8|1|BComplex Between Neamine and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.521
33BNL|1|A+ 3BNL|1|BCrystal structure of the bacterial ribosomal decoding A site in the presence of [Co(NH3)6]Cl3X-RAY DIFFRACTION2.622
42BE0|1|A+ 2BE0|1|BComplex Between Paromomycin Derivative JS5-39 and the 16S-Rrna A-Site.X-RAY DIFFRACTION2.6321
52BEE|1|A+ 2BEE|1|BComplex Between Paromomycin derivative JS4 and the 16S-Rrna A SiteX-RAY DIFFRACTION2.621
62ESJ|1|A+ 2ESJ|1|BComplex between Lividomycin A and the 16S-Rrna A SiteX-RAY DIFFRACTION2.221
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
102ET3|1|A+ 2ET3|1|BComplex Between Gentamicin C1A and the 16S-RRNA A-SiteX-RAY DIFFRACTION2.821
111MWL|1|A+ 1MWL|1|BCrystal structure of geneticin bound to the eubacterial 16S rRNA A siteX-RAY DIFFRACTION2.424
124F8U|1|A+ 4F8U|1|BCrystal structure of the bacterial ribosomal decoding site in complex with sisomicin (C2 form)X-RAY DIFFRACTION222
133BNP|1|A+ 3BNP|1|BCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site (A1555G Mutant)X-RAY DIFFRACTION2.722
143BNT|1|ACrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site in the Presence of [Co(NH3)6]Cl3 (A1555G mutant, Br-derivative)X-RAY DIFFRACTION2.321

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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