BGSU RNA Site

Equivalence class NR_all_43554.2 Obsolete

#IFECompound(s)RNA source organismTitleMethodResolutionDate
13TD1|1|B+ 3TD1|1|A (rep)RNA (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
22ESI|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
31YRJ|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
44PDQ|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')Crystal structure of the bacterial ribosomal decoding site in complex with 4'-deoxy-4'-fluoro neomycin analogX-RAY DIFFRACTION32015-01-07
52F4T|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
62O3Y|1|A+ 2O3Y|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3')Crystal Structure of the Homo sapiens Cytoplasmic Ribosomal Decoding Site in Presence of Paromamine Derivative NB30X-RAY DIFFRACTION2.72007-11-06
72O3V|1|A+ 2O3V|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3')Crystal Structure of the Homo sapiens Cytoplasmic Ribosomal Decoding Site complexed with paromamine derivative NB33X-RAY DIFFRACTION2.82007-11-06
83BNS|1|A+ 3BNS|1|BA site of human mitochondrial ribosome, chain three, A site of human mitochondrial ribosome, chain twoCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site (A1555G mutant, Br-derivative)X-RAY DIFFRACTION1.92008-06-24
92G5K|1|A+ 2G5K|1|B5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3'Crystal Structure of the Homo sapiens Cytoplasmic Ribosomal Decoding Site complexed with ApramycinX-RAY DIFFRACTION2.82006-06-20
103BNR|1|A+ 3BNR|1|BA site of human mitochondrial ribosome, chain one, A site of human mitochondrial ribosome, chain twoCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site in the presence of nonspecifically bound paromomycin (A1555G mutant, Br-derivative)X-RAY DIFFRACTION2.12008-06-24
112FQN|1|A+ 2FQN|1|B5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3'Crystal structure of the Homo sapiens cytoplasmic ribosomal decoding A siteX-RAY DIFFRACTION2.32006-02-14
122O3W|1|A+ 2O3W|1|BRNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*CP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3')Crystal Structure of the Homo sapiens Cytoplasmic Ribosomal Decoding Site in presence of paromomycinX-RAY DIFFRACTION2.82007-11-06
133BNQ|1|A+ 3BNQ|1|BA site of human mitochondrial ribosome, A chainCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SrCl2 (A1555G mutant, Br-derivative)X-RAY DIFFRACTION22008-06-24
144GPY|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
154GPW|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
164K31|1|B+ 4K31|1|CRNA (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')Crystal structure of apramycin bound to the leishmanial rRNA A-siteX-RAY DIFFRACTION1.412013-07-31
173TD0|1|B+ 3TD0|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 siteX-RAY DIFFRACTION1.62011-12-07
183BNR|1|C+ 3BNR|1|DA site of human mitochondrial ribosome, chain one, A site of human mitochondrial ribosome, chain threeCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site in the presence of nonspecifically bound paromomycin (A1555G mutant, Br-derivative)X-RAY DIFFRACTION2.12008-06-24
193BNQ|1|C+ 3BNQ|1|DA site of human mitochondrial ribosome, A chain, A site of human mitochondrial ribosome, B chainCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site in the Presence of SrCl2 (A1555G mutant, Br-derivative)X-RAY DIFFRACTION22008-06-24
203BNS|1|C+ 3BNS|1|DA site of human mitochondrial ribosome, chain threeCrystal Structure of the Homo sapiens Mitochondrial Ribosomal Decoding Site (A1555G mutant, Br-derivative)X-RAY DIFFRACTION1.92008-06-24
211LC4|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
222O3X|1|A+ 2O3X|1|BRNA (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')Crystal Structure of the Prokaryotic Ribosomal Decoding Site Complexed with Paromamine Derivative NB30X-RAY DIFFRACTION2.92007-11-06
233WRU|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
244K32|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')Crystal structure of geneticin bound to the leishmanial rRNA A-siteX-RAY DIFFRACTION2.52013-07-31
254GPX|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
264P20|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'Crystal structures of the bacterial ribosomal decoding site complexed with amikacinX-RAY DIFFRACTION2.72014-05-07

Release history

Release2.52.62.72.82.92.102.112.122.132.142.152.162.172.182.192.202.212.222.232.242.252.262.272.282.292.302.312.322.332.342.352.362.372.382.39
Date2015-01-092015-01-162015-01-232015-01-302015-02-062015-02-132015-02-202015-02-272015-03-062015-03-132015-03-202015-03-272015-04-032015-04-102015-04-172015-04-242015-05-012015-05-082015-05-152015-05-222015-05-292015-06-052015-06-122015-06-192015-06-262015-07-032015-07-102015-07-172015-07-242015-07-312015-08-072015-08-142015-08-212015-08-282015-09-04

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_all_43554.2NR_all_43554.12.5(25) 4K31|1|B+4K31|1|C, 4GPY|1|A+4GPY|1|B, 4GPX|1|A+4GPX|1|B, 4GPW|1|A+4GPW|1|B, 3WRU|1|A+3WRU|1|B, 3TD1|1|B+3TD1|1|A, 3TD0|1|B+3TD0|1|A, 3BNS|1|C+3BNS|1|D, 3BNS|1|A+3BNS|1|B, 3BNR|1|C+3BNR|1|D, 3BNR|1|A+3BNR|1|B, 3BNQ|1|C+3BNQ|1|D, 3BNQ|1|A+3BNQ|1|B, 2O3Y|1|A+2O3Y|1|B, 2O3X|1|A+2O3X|1|B, 2O3W|1|A+2O3W|1|B, 2O3V|1|A+2O3V|1|B, 2G5K|1|A+2G5K|1|B, 2FQN|1|A+2FQN|1|B, 2F4T|1|B+2F4T|1|A, 2ESI|1|A+2ESI|1|B, 1YRJ|1|A+1YRJ|1|B, 1LC4|1|A+1LC4|1|B, 4P20|1|A+4P20|1|B, 4K32|1|A+4K32|1|B(1) 4PDQ|1|A+4PDQ|1|B(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_all_43554.2NR_1.5_43554.32.40(1) 4K31|1|B+4K31|1|C(25) 3BNQ|1|A+3BNQ|1|B, 3BNS|1|A+3BNS|1|B, 3WRU|1|A+3WRU|1|B, 4K32|1|A+4K32|1|B, 2ESI|1|A+2ESI|1|B, 2O3V|1|A+2O3V|1|B, 2O3Y|1|A+2O3Y|1|B, 3BNR|1|C+3BNR|1|D, 3TD1|1|B+3TD1|1|A, 4GPY|1|A+4GPY|1|B, 1YRJ|1|A+1YRJ|1|B, 2G5K|1|A+2G5K|1|B, 2O3X|1|A+2O3X|1|B, 3BNR|1|A+3BNR|1|B, 3TD0|1|B+3TD0|1|A, 4GPX|1|A+4GPX|1|B, 4PDQ|1|A+4PDQ|1|B, 1LC4|1|A+1LC4|1|B, 2FQN|1|A+2FQN|1|B, 3BNQ|1|C+3BNQ|1|D, 3BNS|1|C+3BNS|1|D, 4GPW|1|A+4GPW|1|B, 4P20|1|A+4P20|1|B, 2F4T|1|B+2F4T|1|A, 2O3W|1|A+2O3W|1|B(0)
NR_all_43554.2NR_2.0_43554.32.40(6) 3BNS|1|A+3BNS|1|B, 4K31|1|B+4K31|1|C, 3BNS|1|C+3BNS|1|D, 3BNQ|1|A+3BNQ|1|B, 3TD0|1|B+3TD0|1|A, 3BNQ|1|C+3BNQ|1|D(20) 3WRU|1|A+3WRU|1|B, 4K32|1|A+4K32|1|B, 2O3X|1|A+2O3X|1|B, 1YRJ|1|A+1YRJ|1|B, 3TD1|1|B+3TD1|1|A, 2G5K|1|A+2G5K|1|B, 4GPY|1|A+4GPY|1|B, 2O3Y|1|A+2O3Y|1|B, 1LC4|1|A+1LC4|1|B, 3BNR|1|C+3BNR|1|D, 2FQN|1|A+2FQN|1|B, 4GPX|1|A+4GPX|1|B, 4PDQ|1|A+4PDQ|1|B, 3BNR|1|A+3BNR|1|B, 2F4T|1|B+2F4T|1|A, 4GPW|1|A+4GPW|1|B, 2O3W|1|A+2O3W|1|B, 4P20|1|A+4P20|1|B, 2ESI|1|A+2ESI|1|B, 2O3V|1|A+2O3V|1|B(0)
NR_all_43554.2NR_2.5_43554.32.40(12) 4K31|1|B+4K31|1|C, 3TD1|1|B+3TD1|1|A, 3BNR|1|A+3BNR|1|B, 3BNR|1|C+3BNR|1|D, 4K32|1|A+4K32|1|B, 2FQN|1|A+2FQN|1|B, 3BNS|1|A+3BNS|1|B, 3BNS|1|C+3BNS|1|D, 3BNQ|1|A+3BNQ|1|B, 3BNQ|1|C+3BNQ|1|D, 3TD0|1|B+3TD0|1|A, 3WRU|1|A+3WRU|1|B(14) 2F4T|1|B+2F4T|1|A, 2O3Y|1|A+2O3Y|1|B, 4GPX|1|A+4GPX|1|B, 2O3X|1|A+2O3X|1|B, 1LC4|1|A+1LC4|1|B, 4GPY|1|A+4GPY|1|B, 2G5K|1|A+2G5K|1|B, 1YRJ|1|A+1YRJ|1|B, 2O3V|1|A+2O3V|1|B, 4P20|1|A+4P20|1|B, 4GPW|1|A+4GPW|1|B, 2ESI|1|A+2ESI|1|B, 4PDQ|1|A+4PDQ|1|B, 2O3W|1|A+2O3W|1|B(1) 4WCQ|1|A+4WCQ|1|B
NR_all_43554.2NR_20.0_43554.32.40(26) 3BNS|1|A+3BNS|1|B, 3BNS|1|C+3BNS|1|D, 3TD1|1|B+3TD1|1|A, 3WRU|1|A+3WRU|1|B, 4GPW|1|A+4GPW|1|B, 4GPY|1|A+4GPY|1|B, 4K31|1|B+4K31|1|C, 4K32|1|A+4K32|1|B, 1YRJ|1|A+1YRJ|1|B, 4PDQ|1|A+4PDQ|1|B, 2ESI|1|A+2ESI|1|B, 2F4T|1|B+2F4T|1|A, 2G5K|1|A+2G5K|1|B, 2O3V|1|A+2O3V|1|B, 2O3W|1|A+2O3W|1|B, 2O3Y|1|A+2O3Y|1|B, 3BNQ|1|A+3BNQ|1|B, 3BNQ|1|C+3BNQ|1|D, 3BNR|1|C+3BNR|1|D, 3TD0|1|B+3TD0|1|A, 4GPX|1|A+4GPX|1|B, 1LC4|1|A+1LC4|1|B, 4P20|1|A+4P20|1|B, 2FQN|1|A+2FQN|1|B, 2O3X|1|A+2O3X|1|B, 3BNR|1|A+3BNR|1|B(0) (3) 4WCR|1|A+4WCR|1|B, 4WCS|1|A+4WCS|1|B, 4WCQ|1|A+4WCQ|1|B
NR_all_43554.2NR_3.0_43554.32.40(26) 4GPX|1|A+4GPX|1|B, 4P20|1|A+4P20|1|B, 2O3X|1|A+2O3X|1|B, 3BNR|1|A+3BNR|1|B, 3TD0|1|B+3TD0|1|A, 1YRJ|1|A+1YRJ|1|B, 2G5K|1|A+2G5K|1|B, 4GPW|1|A+4GPW|1|B, 4K32|1|A+4K32|1|B, 3BNQ|1|C+3BNQ|1|D, 3BNS|1|C+3BNS|1|D, 1LC4|1|A+1LC4|1|B, 2FQN|1|A+2FQN|1|B, 3WRU|1|A+3WRU|1|B, 4K31|1|B+4K31|1|C, 3BNQ|1|A+3BNQ|1|B, 3BNS|1|A+3BNS|1|B, 2F4T|1|B+2F4T|1|A, 2O3W|1|A+2O3W|1|B, 4GPY|1|A+4GPY|1|B, 4PDQ|1|A+4PDQ|1|B, 2O3Y|1|A+2O3Y|1|B, 3BNR|1|C+3BNR|1|D, 3TD1|1|B+3TD1|1|A, 2ESI|1|A+2ESI|1|B, 2O3V|1|A+2O3V|1|B(0) (1) 4WCQ|1|A+4WCQ|1|B
NR_all_43554.2NR_3.5_43554.32.40(26) 4GPX|1|A+4GPX|1|B, 4K31|1|B+4K31|1|C, 4K32|1|A+4K32|1|B, 1LC4|1|A+1LC4|1|B, 4P20|1|A+4P20|1|B, 2ESI|1|A+2ESI|1|B, 2F4T|1|B+2F4T|1|A, 2FQN|1|A+2FQN|1|B, 2O3V|1|A+2O3V|1|B, 2O3W|1|A+2O3W|1|B, 2O3X|1|A+2O3X|1|B, 3BNQ|1|A+3BNQ|1|B, 3BNQ|1|C+3BNQ|1|D, 3BNR|1|A+3BNR|1|B, 3BNS|1|A+3BNS|1|B, 3BNS|1|C+3BNS|1|D, 3TD0|1|B+3TD0|1|A, 3WRU|1|A+3WRU|1|B, 4GPW|1|A+4GPW|1|B, 4GPY|1|A+4GPY|1|B, 1YRJ|1|A+1YRJ|1|B, 4PDQ|1|A+4PDQ|1|B, 2G5K|1|A+2G5K|1|B, 2O3Y|1|A+2O3Y|1|B, 3BNR|1|C+3BNR|1|D, 3TD1|1|B+3TD1|1|A(0) (3) 4WCS|1|A+4WCS|1|B, 4WCQ|1|A+4WCQ|1|B, 4WCR|1|A+4WCR|1|B
NR_all_43554.2NR_4.0_43554.32.40(26) 3TD1|1|B+3TD1|1|A, 3WRU|1|A+3WRU|1|B, 4GPW|1|A+4GPW|1|B, 4GPY|1|A+4GPY|1|B, 4K31|1|B+4K31|1|C, 1LC4|1|A+1LC4|1|B, 4K32|1|A+4K32|1|B, 1YRJ|1|A+1YRJ|1|B, 4PDQ|1|A+4PDQ|1|B, 2ESI|1|A+2ESI|1|B, 2FQN|1|A+2FQN|1|B, 2G5K|1|A+2G5K|1|B, 2O3V|1|A+2O3V|1|B, 2O3X|1|A+2O3X|1|B, 2O3Y|1|A+2O3Y|1|B, 3BNQ|1|A+3BNQ|1|B, 3BNR|1|A+3BNR|1|B, 3BNR|1|C+3BNR|1|D, 3BNS|1|A+3BNS|1|B, 3BNS|1|C+3BNS|1|D, 4GPX|1|A+4GPX|1|B, 4P20|1|A+4P20|1|B, 2F4T|1|B+2F4T|1|A, 2O3W|1|A+2O3W|1|B, 3BNQ|1|C+3BNQ|1|D, 3TD0|1|B+3TD0|1|A(0) (3) 4WCQ|1|A+4WCQ|1|B, 4WCR|1|A+4WCR|1|B, 4WCS|1|A+4WCS|1|B
NR_all_43554.2NR_all_43554.32.40(26) 3BNR|1|C+3BNR|1|D, 3BNS|1|C+3BNS|1|D, 3TD0|1|B+3TD0|1|A, 3TD1|1|B+3TD1|1|A, 4GPW|1|A+4GPW|1|B, 4GPX|1|A+4GPX|1|B, 4GPY|1|A+4GPY|1|B, 4K32|1|A+4K32|1|B, 1LC4|1|A+1LC4|1|B, 4P20|1|A+4P20|1|B, 1YRJ|1|A+1YRJ|1|B, 4PDQ|1|A+4PDQ|1|B, 2F4T|1|B+2F4T|1|A, 2FQN|1|A+2FQN|1|B, 2G5K|1|A+2G5K|1|B, 2O3W|1|A+2O3W|1|B, 2O3X|1|A+2O3X|1|B, 2O3Y|1|A+2O3Y|1|B, 3BNQ|1|C+3BNQ|1|D, 3BNR|1|A+3BNR|1|B, 3BNS|1|A+3BNS|1|B, 3WRU|1|A+3WRU|1|B, 4K31|1|B+4K31|1|C, 2ESI|1|A+2ESI|1|B, 2O3V|1|A+2O3V|1|B, 3BNQ|1|A+3BNQ|1|B(0) (3) 4WCS|1|A+4WCS|1|B, 4WCQ|1|A+4WCQ|1|B, 4WCR|1|A+4WCR|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).
#SPDBTitleMethodResolutionLength