BGSU RNA Site //

Equivalence class NR_20.0_20721.8 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodÅDate
15E81|1|2K (rep)Transfer 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
25J8B|1|xTransfer RNAP-site tRNA, mRNAThermus thermophilusBacteriaRF00005Crystal structure of Elongation Factor 4 (EF-4/LepA) in complex with GDPCP bound to the Thermus thermophilus 70S ribosomeX-ray diffraction2.62016-05-25
34V95|1|AVTransfer RNAP-site fMet-tRNA, mRNAThermus thermophilusBacteriaRF00005Crystal structure of YAEJ bound to the 70S ribosomeX-ray diffraction3.22014-07-09
44V7J|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
54V9B|1|ACTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
64V7J|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
75E81|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
84V9B|1|CCTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
94V95|1|CVTransfer RNAP-site fMet-tRNA, mRNAThermus thermophilusBacteriaRF00005Crystal structure of YAEJ bound to the 70S ribosomeX-ray diffraction3.22014-07-09
104V7K|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
114V7K|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
124WT8|1|C4Transfer RNAP site trNA, mRNAThermus thermophilusBacteriaRF00005Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complexX-ray diffraction3.42015-01-21
134V9A|1|ACTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tetracycline.X-ray diffraction3.32014-07-09
144L47|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
154V7K|1|BwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-ray diffraction3.62014-07-09
164L47|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
174V7K|1|AwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-ray diffraction3.62014-07-09
184V9A|1|CCTransfer RNATRNA-FMET, MRNAThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tetracycline.X-ray diffraction3.32014-07-09
194V7J|1|AwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (precleavage state)X-ray diffraction3.32014-07-09
204V7J|1|BwTransfer RNARNA (77-MER)Thermus thermophilusBacteriaRF00005Structure of RelE nuclease bound to the 70S ribosome (precleavage state)X-ray diffraction3.32014-07-09
214V9B|1|CDTransfer RNATRNA-FMETThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
224V4J|1|zTransfer RNAP-site tRNAfMET, MRNAThermus thermophilusBacteriaRF00005Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome.X-ray diffraction3.832014-07-09
234V9B|1|ADTransfer RNATRNA-FMETThermus thermophilusBacteriaRF00005Crystal Structure of the 70S ribosome with tigecycline.X-ray diffraction3.12014-07-09
244V5A|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
254V5A|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
264V8X|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
274V9N|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
284V8X|1|CVTransfer RNAtransfer RNA, BACTERIAL TOXIN YOEBThermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
294V9N|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
304V8U|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
314V8U|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
324V8X|1|CWTransfer RNAtransfer RNAThermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
334V8X|1|AWTransfer RNAtransfer RNAThermus thermophilusBacteriaRF00005Structure of Thermus thermophilus ribosomeX-ray diffraction3.352014-07-09
346BOK|1|IASmall subunit ribosomal RNA fragment16S ribosomal RNA, mRNAThermus thermophilusBacteriaRF00005E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-ray diffraction3.552018-05-23
356BOK|1|LCSmall subunit ribosomal RNA fragment16S ribosomal RNA, mRNAThermus thermophilusBacteriaRF00005E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-ray diffraction3.552018-05-23
366BOK|1|DSmall subunit ribosomal RNA fragment16S ribosomal RNAThermus thermophilusBacteriaRF00005E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-ray diffraction3.552018-05-23
376BOK|1|GBSmall subunit ribosomal RNA fragment16S ribosomal RNAThermus thermophilusBacteriaRF00005E. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-ray diffraction3.552018-05-23
383J9Z|1|S6Transfer RNAP-tRNAThermus thermophilusBacteriaRF00005Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GElectron microscopy3.62015-07-01
395ZLU|1|DDTransfer RNAP-site tRNA, RNA (25-mer)Thermus thermophilusBacteriaRF00005Ribosome Structure bound to ABC-F protein.Electron microscopy3.62018-08-01
403JA1|1|S2Transfer RNAP/E-tRNA, mRNAThermus thermophilusBacteriaRF00005Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GElectron microscopy3.62015-07-01
415LMT|1|ZTransfer RNAtRNAi, mRNAThermus thermophilusBacteriaRF00005Structure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-3)Electron microscopy4.152016-10-05
425LMR|1|ZTransfer RNAtRNAi, mRNAThermus thermophilusBacteriaRF00005Structure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-2B)Electron microscopy4.452016-10-05
434V68|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
444V5N|1|AVTransfer RNATRNA, MRNAThermus thermophilusBacteriaRF00005tRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST)Electron microscopy7.62014-07-09
454V5M|1|AVTransfer RNATRNA, MRNAThermus thermophilusBacteriaRF00005tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE)Electron microscopy7.82014-07-09

Release history

Release3.333.343.353.363.373.383.393.403.413.423.433.443.453.463.473.483.493.503.513.523.533.543.553.563.573.583.593.603.613.623.633.643.653.663.673.683.693.703.713.723.733.743.753.763.773.783.793.803.813.823.833.843.853.863.873.883.893.903.913.923.933.943.953.963.973.98
Date2018-08-032018-08-102018-08-172018-08-242018-08-312018-09-072018-09-142018-09-212018-09-282018-10-052018-10-122018-10-192018-10-262018-11-022018-11-092018-11-162018-11-232018-11-302018-12-072018-12-142018-12-212018-12-282019-01-042019-01-112019-01-182019-01-252019-02-012019-02-082019-02-152019-02-222019-03-012019-03-082019-03-152019-03-222019-03-292019-04-052019-04-122019-04-192019-04-262019-05-032019-05-102019-05-172019-05-242019-05-312019-06-072019-06-142019-06-212019-06-282019-07-052019-07-122019-07-192019-07-262019-08-022019-08-092019-08-162019-08-232019-08-282019-09-042019-09-112019-09-192019-09-252019-10-032019-10-092019-10-162019-10-232019-10-30

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_20.0_20721.8NR_20.0_20721.73.33(44) 4V7J|1|Bv, 6BOK|1|LC, 4V7J|1|Aw, 6BOK|1|IA, 4V7J|1|Av, 6BOK|1|GB, 4V68|1|AV, 6BOK|1|D, 4V5N|1|AV, 5LMT|1|Z, 4V5M|1|AV, 5LMR|1|Z, 4V5A|1|CW, 5J8B|1|x, 4V5A|1|AW, 5E81|1|2L, 4V4J|1|z, 5E81|1|2K, 4L47|1|XV, 4WT8|1|C4, 4L47|1|QV, 4V9N|1|CW, 3JA1|1|S2, 4V9N|1|AW, 3J9Z|1|S6, 4V9B|1|CD, 4V9B|1|CC, 4V9B|1|AD, 4V9B|1|AC, 4V9A|1|CC, 4V9A|1|AC, 4V95|1|CV, 4V95|1|AV, 4V8X|1|CW, 4V8X|1|CV, 4V8X|1|AW, 4V8X|1|AV, 4V8U|1|CW, 4V8U|1|AW, 4V7K|1|Bw, 4V7K|1|Bv, 4V7K|1|Aw, 4V7K|1|Av, 4V7J|1|Bw(1) 5ZLU|1|DD(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_20.0_20721.8NR_20.0_20721.93.99(44) 4V7K|1|Av, 4V9B|1|CC, 5LMT|1|Z, 4V5M|1|AV, 4V8X|1|CW, 4V9N|1|AW, 3J9Z|1|S6, 4V7K|1|Bv, 6BOK|1|GB, 4V68|1|AV, 4V95|1|CV, 4WT8|1|C4, 4L47|1|QV, 4V8U|1|AW, 6BOK|1|LC, 4V7J|1|Aw, 4V9A|1|CC, 5E81|1|2L, 4V4J|1|z, 4V8X|1|AV, 4V7J|1|Bw, 4V9B|1|AD, 5LMR|1|Z, 4V5A|1|CW, 4V8X|1|CV, 4V7K|1|Aw, 4V9B|1|CD, 6BOK|1|D, 4V5N|1|AV, 4V95|1|AV, 4V9N|1|CW, 3JA1|1|S2, 4V7K|1|Bw, 6BOK|1|IA, 4V7J|1|Av, 4V9A|1|AC, 5E81|1|2K, 4L47|1|XV, 4V8U|1|CW, 4V7J|1|Bv, 4V9B|1|AC, 5J8B|1|x, 4V5A|1|AW, 4V8X|1|AW(1) 5ZLU|1|DD(0)
NR_20.0_20721.8NR_20.0_29074.13.99(1) 5ZLU|1|DD(44) 4L47|1|QV, 4V8U|1|AW, 4WT8|1|C4, 4V7J|1|Aw, 4V9A|1|CC, 6BOK|1|LC, 4V4J|1|z, 4V8X|1|AV, 5E81|1|2L, 4V7J|1|Bw, 4V9B|1|AD, 4V5A|1|CW, 4V8X|1|CV, 5LMR|1|Z, 4V7K|1|Aw, 4V9B|1|CD, 4V5N|1|AV, 4V95|1|AV, 6BOK|1|D, 3JA1|1|S2, 4V7K|1|Bw, 4V9N|1|CW, 4V7J|1|Av, 4V9A|1|AC, 6BOK|1|IA, 4L47|1|XV, 4V8U|1|CW, 5E81|1|2K, 4V7J|1|Bv, 4V9B|1|AC, 4V5A|1|AW, 4V8X|1|AW, 5J8B|1|x, 4V7K|1|Av, 4V9B|1|CC, 4V5M|1|AV, 4V8X|1|CW, 5LMT|1|Z, 3J9Z|1|S6, 4V7K|1|Bv, 4V9N|1|AW, 4V68|1|AV, 4V95|1|CV, 6BOK|1|GB(0)

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
15ZLU|1|DDRibosome Structure bound to ABC-F protein.ELECTRON MICROSCOPY3.672
23J9Z|1|S6Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GELECTRON MICROSCOPY3.677
34V8X|1|CVStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3577
44V8X|1|AVStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3576
54V4J|1|zInteractions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome.X-RAY DIFFRACTION3.8377
64V68|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
74L47|1|QVCrystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the RibosomeX-RAY DIFFRACTION3.2277
84L47|1|XVCrystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the RibosomeX-RAY DIFFRACTION3.2277
94V95|1|AVCrystal structure of YAEJ bound to the 70S ribosomeX-RAY DIFFRACTION3.277
104V7J|1|AvStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.376
114V7K|1|AvStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.676
124V7K|1|BvStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.676
134V7J|1|BvStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.376
144V9N|1|CWCrystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2.X-RAY DIFFRACTION3.477
154V9N|1|AWCrystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2.X-RAY DIFFRACTION3.477
164V95|1|CVCrystal structure of YAEJ bound to the 70S ribosomeX-RAY DIFFRACTION3.277
174WT8|1|C4Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complexX-RAY DIFFRACTION3.477
184V9A|1|CCCrystal Structure of the 70S ribosome with tetracycline.X-RAY DIFFRACTION3.377
194V9B|1|CCCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
204V9A|1|ACCrystal Structure of the 70S ribosome with tetracycline.X-RAY DIFFRACTION3.377
214V9B|1|ACCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
225E81|1|2KStructure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pairX-RAY DIFFRACTION2.9572
235J8B|1|xCrystal structure of Elongation Factor 4 (EF-4/LepA) in complex with GDPCP bound to the Thermus thermophilus 70S ribosomeX-RAY DIFFRACTION2.673
246BOK|1|IAE. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-RAY DIFFRACTION3.5573
256BOK|1|LCE. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-RAY DIFFRACTION3.5573
265E81|1|2LStructure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with wobble pairX-RAY DIFFRACTION2.9572
275LMR|1|ZStructure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-2B)ELECTRON MICROSCOPY4.4572
285LMT|1|ZStructure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-3)ELECTRON MICROSCOPY4.1572
294V5N|1|AVtRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST)ELECTRON MICROSCOPY7.677
304V8U|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
314V8U|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
324V5A|1|AWStructure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMetX-RAY DIFFRACTION3.576
334V5A|1|CWStructure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMetX-RAY DIFFRACTION3.576
344V7K|1|BwStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.677
354V7J|1|BwStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.377
364V8X|1|CWStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3577
374V7J|1|AwStructure of RelE nuclease bound to the 70S ribosome (precleavage state)X-RAY DIFFRACTION3.377
384V8X|1|AWStructure of Thermus thermophilus ribosomeX-RAY DIFFRACTION3.3577
394V7K|1|AwStructure of RelE nuclease bound to the 70S ribosome (postcleavage state)X-RAY DIFFRACTION3.677
406BOK|1|DE. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-RAY DIFFRACTION3.5573
416BOK|1|GBE. coli release factor 1 (containing deletion 302-304) bound to the 70S ribosomeX-RAY DIFFRACTION3.5573
424V9B|1|ADCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
434V9B|1|CDCrystal Structure of the 70S ribosome with tigecycline.X-RAY DIFFRACTION3.177
444V5M|1|AVtRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE)ELECTRON MICROSCOPY7.877
453JA1|1|S2Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor GELECTRON MICROSCOPY3.677