BGSU RNA Site //

Equivalence class NR_all_20721.4 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodÅDate
14V9B|1|AC (rep)Transfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
24V5M|1|AVTransfer RNATRNA, MRNAThermus thermophilusBacteriaRF00005tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE)Electron microscopy7.82014-07-09
34V95|1|AVTransfer RNAP-site fMet-tRNA, mRNAThermus thermophilusBacteriaRF00005Crystal structure of YAEJ bound to the 70S ribosomeX-ray diffraction3.22014-07-09
44V8X|1|CVTransfer RNAtransfer RNA, BACTERIAL TOXIN YOEBThermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
54V9A|1|ACTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tetracycline.X-ray diffraction3.32014-07-09
64V5N|1|AVTransfer RNATRNA, MRNAThermus thermophilusBacteriaRF00005tRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST)Electron microscopy7.62014-07-09
74V9N|1|AWTransfer RNAP-site tRNA-fMet, messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3')Thermus thermophilusBacteriaRF00005Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2.X-ray diffraction3.42014-07-09
84V9N|1|CWTransfer RNAP-site tRNA-fMet, messenger RNA (5'-R(*AP*AP*UP*GP*UP*AP*G)-3')Thermus thermophilusBacteriaRF00005Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2.X-ray diffraction3.42014-07-09
93J9Z|1|S6Transfer RNAP-tRNAThermus thermophilusBacteriaRF00005Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GElectron microscopy3.62015-07-01
104V8X|1|AVTransfer RNAtransfer RNA, 5'-R(*GP*GP*CP*AP*AP*GP*GP*AP*GP*GP*UP*AP*AP*AP *AP*AP*UP*G U2M A2M A2MP*AP*AP*AP*A)-3'Thermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
114V7J|1|AvTransfer RNARNA (77-MER), RNA (5'-R(*GP*GP*CP*AP*AP*GP*GP*AP*GP*GP*UP*A*AP*AP*AP*AP*UP*GP*(OMU)P*(A2M)P*(OMG)P*AP*AP*AP*A)-3')Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (precleavage state)X-ray diffraction3.32014-07-09
124V7J|1|BvTransfer RNARNA (77-MER), RNA (5'-R(*GP*GP*CP*AP*AP*GP*GP*AP*GP*GP*UP*A*AP*AP*AP*AP*UP*GP*(OMU)P*(A2M)P*(OMG)P*AP*AP*AP*A)-3')Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (precleavage state)X-ray diffraction3.32014-07-09
134V9B|1|CCTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
144V95|1|CVTransfer RNAP-site fMet-tRNA, mRNAThermus thermophilusBacteriaRF00005Crystal structure of YAEJ bound to the 70S ribosomeX-ray diffraction3.22014-07-09
155E81|1|2KTransfer RNAtRNA-fMet, mRNAThermus thermophilusBacteriaRF00005Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pairX-ray diffraction2.952016-01-27
165E81|1|2LTransfer RNAtRNA-fMet, mRNAThermus thermophilusBacteriaRF00005Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pairX-ray diffraction2.952016-01-27
174V7K|1|BvTransfer RNARNA (77-MER), RNA (5'-R(*A*AP*GP*UP*AP*AP*AP*AP*AP*UP*GP*UP*A*(CCC))-3')Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-ray diffraction3.62014-07-09
184WT8|1|C4Transfer RNAP site trNA, mRNAThermus thermophilusBacteriaRF00005Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complexX-ray diffraction3.42015-01-21
194V9A|1|CCTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tetracycline.X-ray diffraction3.32014-07-09
204L47|1|QVTransfer RNAP-site tRNA fMet, messenger RNA, A-site ASL SufA6Thermus thermophilusBacteriaRF00005Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the RibosomeX-ray diffraction3.222014-08-06
213JA1|1|S2Transfer RNAP/E-tRNA, mRNAThermus thermophilusBacteriaRF00005Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GElectron microscopy3.62015-07-01
224L47|1|XVTransfer RNAP-site tRNA fMet, messenger RNA, A-site ASL SufA6Thermus thermophilusBacteriaRF00005Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the RibosomeX-ray diffraction3.222014-08-06
234V68|1|AVTransfer RNAP-SITE TRNA, SYNTHETIC MRNAThermus thermophilusBacteriaRF00005T. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map.Electron microscopy6.42014-07-09
244V7K|1|AvTransfer RNARNA (77-MER), RNA (5'-R(*A*AP*GP*UP*AP*AP*AP*AP*AP*UP*GP*UP*A*(CCC))-3')Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-ray diffraction3.62014-07-09
254V8U|1|AWTransfer RNARNAThermus thermophilusBacteriaRF00005Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex.X-ray diffraction3.72014-07-09
264V8U|1|CWTransfer RNARNAThermus thermophilusBacteriaRF00005Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex.X-ray diffraction3.72014-07-09
274V4J|1|zTransfer RNAP-site tRNAfMET, MRNAThermus thermophilusBacteriaRF00005Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome.X-ray diffraction3.832014-07-09
284V9B|1|ADTransfer RNATRNA-FMETThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
294V7K|1|BwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-ray diffraction3.62014-07-09
304V8X|1|CWTransfer RNAtransfer RNAThermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
314V5A|1|AWTransfer RNATRNA-FMETEscherichia coliBacteriaRF00005Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMetX-ray diffraction3.52014-07-09
324V7K|1|AwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-ray diffraction3.62014-07-09
334V8X|1|AWTransfer RNAtransfer RNAThermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
344V7J|1|BwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (precleavage state)X-ray diffraction3.32014-07-09
354V7J|1|AwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (precleavage state)X-ray diffraction3.32014-07-09
364V5A|1|CWTransfer RNATRNA-FMETEscherichia coliBacteriaRF00005Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMetX-ray diffraction3.52014-07-09
374V9B|1|CDTransfer RNATRNA-FMETThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09

Release history

Release2.602.612.622.632.642.652.662.672.682.692.702.712.722.732.742.752.76
Date2016-01-292016-02-052016-02-122016-02-192016-02-262016-03-042016-03-112016-03-182016-03-252016-04-012016-04-082016-04-152016-04-222016-04-292016-05-062016-05-132016-05-20

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_all_20721.4NR_all_20721.32.60(35) 4V95|1|CV, 4V68|1|AV, 4V95|1|AV, 4V5N|1|AV, 4V8X|1|CW, 4V5M|1|AV, 4V8X|1|CV, 4V5A|1|CW, 4V8X|1|AW, 4V5A|1|AW, 4V8X|1|AV, 4V4J|1|z, 4V8U|1|CW, 4L47|1|XV, 4V8U|1|AW, 4WT8|1|C4, 4L47|1|QV, 4V7K|1|Bw, 4V9N|1|CW, 3JA1|1|S2, 4V7K|1|Bv, 4V9N|1|AW, 3J9Z|1|S6, 4V7K|1|Aw, 4V9B|1|CD, 4V7K|1|Av, 4V9B|1|CC, 4V7J|1|Bw, 4V9B|1|AD, 4V7J|1|Bv, 4V9B|1|AC, 4V7J|1|Aw, 4V9A|1|CC, 4V7J|1|Av, 4V9A|1|AC(2) 5E81|1|2K, 5E81|1|2L(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_all_20721.4NR_20.0_20721.52.77(37) 4V7K|1|Bw, 4V8X|1|AW, 4V95|1|CV, 4V9B|1|AD, 4V9N|1|CW, 3JA1|1|S2, 4V5A|1|AW, 4V68|1|AV, 4V7J|1|Bw, 4V7K|1|Bv, 4V8X|1|AV, 4V95|1|AV, 4V9B|1|AC, 4V9N|1|AW, 5E81|1|2L, 3J9Z|1|S6, 4V4J|1|z, 4V5N|1|AV, 4V7J|1|Bv, 4V8U|1|CW, 4V8X|1|CW, 4V9A|1|CC, 4V9B|1|CD, 5E81|1|2K, 4L47|1|XV, 4V5M|1|AV, 4V7J|1|Aw, 4V7K|1|Aw, 4V8U|1|AW, 4V8X|1|CV, 4V9A|1|AC, 4V9B|1|CC, 4WT8|1|C4, 4L47|1|QV, 4V5A|1|CW, 4V7J|1|Av, 4V7K|1|Av(0) (1) 5J8B|1|x
NR_all_20721.4NR_3.0_20721.52.77(2) 5E81|1|2L, 5E81|1|2K(35) 4V7J|1|Bw, 4V7K|1|Bw, 4V8X|1|AW, 4V95|1|CV, 4V9B|1|AD, 4V9N|1|CW, 3J9Z|1|S6, 4V4J|1|z, 4V5N|1|AV, 4V7J|1|Bv, 4V7K|1|Bv, 4V8X|1|AV, 4V95|1|AV, 4V9B|1|AC, 4V9N|1|AW, 3JA1|1|S2, 4V5A|1|AW, 4V68|1|AV, 4L47|1|XV, 4V5M|1|AV, 4V7J|1|Aw, 4V7K|1|Aw, 4V8U|1|CW, 4V8X|1|CW, 4V9A|1|CC, 4V9B|1|CD, 4L47|1|QV, 4V5A|1|CW, 4V7J|1|Av, 4V7K|1|Av, 4V8U|1|AW, 4V8X|1|CV, 4V9A|1|AC, 4V9B|1|CC, 4WT8|1|C4(1) 5J8B|1|x
NR_all_20721.4NR_3.5_20721.52.77(25) 5E81|1|2K, 4V9B|1|AD, 4V9B|1|CC, 5E81|1|2L, 4V95|1|CV, 4V9B|1|CD, 4L47|1|QV, 4V9A|1|AC, 4V9N|1|AW, 4L47|1|XV, 4V9A|1|CC, 4V9N|1|CW, 4V9B|1|AC, 4WT8|1|C4, 4V8X|1|AW, 4V5A|1|CW, 4V7J|1|Av, 4V8X|1|CV, 4V7J|1|Aw, 4V8X|1|CW, 4V7J|1|Bv, 4V95|1|AV, 4V7J|1|Bw, 4V5A|1|AW, 4V8X|1|AV(12) 4V5M|1|AV, 4V7K|1|Aw, 4V8U|1|CW, 4V4J|1|z, 4V7K|1|Av, 4V8U|1|AW, 3JA1|1|S2, 4V68|1|AV, 4V7K|1|Bw, 3J9Z|1|S6, 4V5N|1|AV, 4V7K|1|Bv(1) 5J8B|1|x
NR_all_20721.4NR_4.0_20721.52.77(34) 4V8U|1|AW, 4V8X|1|AV, 4V8X|1|AW, 4V8X|1|CV, 4V95|1|AV, 4V95|1|CV, 4V9A|1|AC, 3JA1|1|S2, 4V9B|1|AC, 4L47|1|QV, 4V9B|1|AD, 4L47|1|XV, 4V9B|1|CC, 4V5A|1|AW, 4V9N|1|AW, 4V5A|1|CW, 4V9N|1|CW, 4V7J|1|Av, 4WT8|1|C4, 4V7J|1|Bv, 5E81|1|2L, 4V7J|1|Bw, 4V7K|1|Av, 4V7K|1|Bv, 4V7K|1|Bw, 4V8U|1|CW, 4V8X|1|CW, 3J9Z|1|S6, 4V9A|1|CC, 4V4J|1|z, 4V9B|1|CD, 4V7J|1|Aw, 5E81|1|2K, 4V7K|1|Aw(3) 4V68|1|AV, 4V5M|1|AV, 4V5N|1|AV(1) 5J8B|1|x
NR_all_20721.4NR_all_20721.52.77(37) 4V7J|1|Bw, 4V7K|1|Bw, 4V8X|1|AW, 3JA1|1|S2, 4V5A|1|AW, 4V68|1|AV, 4V95|1|CV, 4V9B|1|AD, 4V9N|1|CW, 4V7J|1|Bv, 4V7K|1|Bv, 4V8X|1|AV, 3J9Z|1|S6, 4V4J|1|z, 4V5N|1|AV, 4V95|1|AV, 4V9B|1|AC, 4V9N|1|AW, 5E81|1|2L, 4V7J|1|Aw, 4V7K|1|Aw, 4V8U|1|CW, 4L47|1|XV, 4V5M|1|AV, 4V8X|1|CW, 4V9A|1|CC, 4V9B|1|CD, 5E81|1|2K, 4V7K|1|Av, 4V8U|1|AW, 4V8X|1|CV, 4L47|1|QV, 4V5A|1|CW, 4V7J|1|Av, 4V9A|1|AC, 4V9B|1|CC, 4WT8|1|C4(0) (1) 5J8B|1|x

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
13J9Z|1|S6Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GELECTRON MICROSCOPY3.677
25E81|1|2KStructure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pairX-RAY DIFFRACTION2.9572
34V9B|1|ACCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
44V9A|1|ACCrystal Structure of the 70S ribosome with tetracycline.X-RAY DIFFRACTION3.377
55E81|1|2LStructure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pairX-RAY DIFFRACTION2.9572
64WT8|1|C4Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complexX-RAY DIFFRACTION3.477
74V9A|1|CCCrystal Structure of the 70S ribosome with tetracycline.X-RAY DIFFRACTION3.377
84V9B|1|CCCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
94V95|1|CVCrystal structure of YAEJ bound to the 70S ribosomeX-RAY DIFFRACTION3.277
104V9N|1|AWCrystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2.X-RAY DIFFRACTION3.477
114V9N|1|CWCrystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2.X-RAY DIFFRACTION3.477
124V7J|1|BvStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.376
134V7K|1|BvStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.676
144V7K|1|AvStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.676
154V7J|1|AvStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.376
164V95|1|AVCrystal structure of YAEJ bound to the 70S ribosomeX-RAY DIFFRACTION3.277
174L47|1|XVCrystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the RibosomeX-RAY DIFFRACTION3.2277
184L47|1|QVCrystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the RibosomeX-RAY DIFFRACTION3.2277
194V68|1|AVT. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map.ELECTRON MICROSCOPY6.476
204V4J|1|zInteractions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome.X-RAY DIFFRACTION3.8377
214V8X|1|CVStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3577
224V8X|1|AVStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3576
234V8U|1|AWCrystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex.X-RAY DIFFRACTION3.776
244V8U|1|CWCrystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex.X-RAY DIFFRACTION3.776
254V5A|1|AWStructure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMetX-RAY DIFFRACTION3.576
264V5A|1|CWStructure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMetX-RAY DIFFRACTION3.576
274V7K|1|AwStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.677
284V8X|1|CWStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3577
294V7J|1|AwStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.377
304V8X|1|AWStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3577
314V7J|1|BwStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.377
324V7K|1|BwStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.677
334V9B|1|CDCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
344V9B|1|ADCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
354V5N|1|AVtRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST)ELECTRON MICROSCOPY7.677
363JA1|1|S2Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GELECTRON MICROSCOPY3.677
374V5M|1|AVtRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE)ELECTRON MICROSCOPY7.877
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