RNA 3D Hub //

Equivalence class NR_20.0_69813.9 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
16OF1|1|1w (rep)Transfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-ray diffraction2.8732019-04-17
25IBB|1|1KTransfer RNAmRNA, tRNAValEscherichia coliBacteriaRF00005Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-siteX-ray diffraction2.96722016-05-25
36CAE|1|1yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.6742018-04-18
46O97|1|1wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-ray diffraction2.75732019-04-17
56OF1|1|1yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-ray diffraction2.8732019-04-17
66BY1|1|AWTransfer RNAMessenger RNA, Valine-specific transfer RNAEscherichia coliBacteriaRF00005E. coli pH03H9 complexX-ray diffraction3.94762019-02-27
76OF1|1|2wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-ray diffraction2.8732019-04-17
86O97|1|1yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-ray diffraction2.75732019-04-17
96ND6|1|1yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-ray diffraction2.85742019-02-20
106BY1|1|BWTransfer RNAMessenger RNA, Valine-specific transfer RNAEscherichia coliBacteriaRF00005E. coli pH03H9 complexX-ray diffraction3.94762019-02-27
115IBB|1|3LTransfer RNAtRNAValEscherichia coliBacteriaRF00005Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-siteX-ray diffraction2.96712016-05-25
126CAE|1|1wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.6732018-04-18
136BY1|1|BVTransfer RNAMessenger RNA, Valine-specific transfer RNAEscherichia coliBacteriaRF00005E. coli pH03H9 complexX-ray diffraction3.94762019-02-27
146BY1|1|AVTransfer RNAMessenger RNA, Valine-specific transfer RNAEscherichia coliBacteriaRF00005E. coli pH03H9 complexX-ray diffraction3.94762019-02-27
156OF1|1|2yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-ray diffraction2.8732019-04-17
166CAE|1|2yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.6732018-04-18
176ND6|1|1wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-ray diffraction2.85732019-02-20
186CAE|1|2wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-ray diffraction2.6732018-04-18
196O97|1|2yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-ray diffraction2.75732019-04-17
205IBB|1|3KTransfer RNAtRNAValEscherichia coliBacteriaRF00005Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-siteX-ray diffraction2.96702016-05-25
216ND6|1|2yTransfer RNAA-site and E-site tRNAsEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-ray diffraction2.85732019-02-20
226O97|1|2wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-ray diffraction2.75732019-04-17
236ND6|1|2wTransfer RNAA-site and E-site tRNAs, mRNAEscherichia coliBacteriaRF00005Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-ray diffraction2.85732019-02-20
246N1D|1|BPTNTransfer RNAP-tRNAEscherichia coliBacteriaRF00005X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid StateX-ray diffraction3.2762019-04-03
256N1D|1|APTNTransfer RNAmRNA, P-tRNAEscherichia coliBacteriaRF00005X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid StateX-ray diffraction3.2762019-04-03
266BY1|1|AYTransfer RNAMessenger RNA, Valine-specific transfer RNAEscherichia coliBacteriaRF00005E. coli pH03H9 complexX-ray diffraction3.94762019-02-27
277K00|1|YTransfer RNAA-site tRNA-val, mRNAEscherichia coliBacteriaRF00005Structure of the Bacterial Ribosome at 2 Angstrom ResolutionElectron microscopy1.98742020-09-23
287B5K|1|9Transfer RNAE-site val tRNA (76-MER)Escherichia coli K-12BacteriaRF00005E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain.Electron microscopy2.9762021-05-26
294V7A|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal post-translocation complex (post4)Electron microscopy9762014-07-09
304V6Y|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1a)Electron microscopy12762014-07-09
314V75|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic post-translocation state (post1)Electron microscopy12762014-07-09
324V6Z|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1b)Electron microscopy12762014-07-09
334V72|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre4)Electron microscopy13762014-07-09
344V73|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre5a)Electron microscopy15762014-07-09
354V79|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post3b)Electron microscopy15762014-07-09
364V70|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre3)Electron microscopy17762014-07-09
374V76|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post2a)Electron microscopy17762014-07-09
384V77|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post2b)Electron microscopy17762014-07-09
394V74|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF0000570S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre5b)Electron microscopy17762014-07-09
404V78|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post3a)Electron microscopy20762014-07-09
414V71|1|A1Transfer RNA5'-R(*AP*CP*UP*AP*UP*GP*GP*UP*UP*UP*UP*UP*AP*UP*U)-3', fMet-Val-tRNA-ValEscherichia coliBacteriaRF00005E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre2)Electron microscopy20762014-07-09

Release history

Release3.1803.1813.1823.1833.1843.1853.1863.1873.1883.1893.1903.1913.1923.1933.1943.1953.1963.1973.1983.1993.2003.2013.2023.2033.2043.2053.2063.2073.2083.2093.2103.2113.2123.213
Date2021-05-262021-06-022021-06-092021-06-162021-06-232021-06-302021-07-072021-07-142021-07-212021-07-282021-08-042021-08-112021-08-182021-08-252021-09-012021-09-082021-09-152021-09-222021-09-292021-10-062021-10-132021-10-202021-10-272021-11-032021-11-102021-11-172021-11-242021-12-012021-12-082021-12-152021-12-222021-12-292022-01-052022-01-12

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_20.0_69813.9NR_20.0_69813.83.180(40) 4V6Y|1|A1, 4V6Z|1|A1, 4V70|1|A1, 4V71|1|A1, 4V72|1|A1, 4V73|1|A1, 4V74|1|A1, 4V75|1|A1, 4V76|1|A1, 4V77|1|A1, 4V78|1|A1, 4V79|1|A1, 4V7A|1|A1, 5IBB|1|1K, 5IBB|1|3K, 5IBB|1|3L, 6BY1|1|AV, 6BY1|1|AW, 6BY1|1|AY, 6BY1|1|BV, 6BY1|1|BW, 6CAE|1|1w, 6CAE|1|1y, 6CAE|1|2w, 6CAE|1|2y, 6N1D|1|APTN, 6N1D|1|BPTN, 6ND6|1|1w, 6ND6|1|1y, 6ND6|1|2w, 6ND6|1|2y, 6O97|1|1w, 6O97|1|1y, 6O97|1|2w, 6O97|1|2y, 6OF1|1|1w, 6OF1|1|1y, 6OF1|1|2w, 6OF1|1|2y, 7K00|1|Y(1) 7B5K|1|9(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_20.0_69813.9NR_20.0_69813.103.214(41) 4V6Y|1|A1, 4V6Z|1|A1, 4V70|1|A1, 4V71|1|A1, 4V72|1|A1, 4V73|1|A1, 4V74|1|A1, 4V75|1|A1, 4V76|1|A1, 4V77|1|A1, 4V78|1|A1, 4V79|1|A1, 4V7A|1|A1, 5IBB|1|1K, 5IBB|1|3K, 5IBB|1|3L, 6BY1|1|AV, 6BY1|1|AW, 6BY1|1|AY, 6BY1|1|BV, 6BY1|1|BW, 6CAE|1|1w, 6CAE|1|1y, 6CAE|1|2w, 6CAE|1|2y, 6N1D|1|APTN, 6N1D|1|BPTN, 6ND6|1|1w, 6ND6|1|1y, 6ND6|1|2w, 6ND6|1|2y, 6O97|1|1w, 6O97|1|1y, 6O97|1|2w, 6O97|1|2y, 6OF1|1|1w, 6OF1|1|1y, 6OF1|1|2w, 6OF1|1|2y, 7B5K|1|9, 7K00|1|Y(0) (2) 7EQJ|1|A, 7EQJ|1|B

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.

#SViewPDBTitleMethodResolution#NTs
14V77|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post2b)ELECTRON MICROSCOPY1776
25IBB|1|1KStructure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-siteX-RAY DIFFRACTION2.9672
34V73|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre5a)ELECTRON MICROSCOPY1576
47K00|1|YStructure of the Bacterial Ribosome at 2 Angstrom ResolutionELECTRON MICROSCOPY1.9874
56ND6|1|1wCrystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-RAY DIFFRACTION2.8573
66O97|1|1wCrystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-RAY DIFFRACTION2.7573
76OF1|1|1wCrystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-RAY DIFFRACTION2.873
86CAE|1|1wCrystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.673
96CAE|1|2wCrystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.673
106OF1|1|2wCrystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-RAY DIFFRACTION2.873
116O97|1|2wCrystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-RAY DIFFRACTION2.7573
126ND6|1|2wCrystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-RAY DIFFRACTION2.8573
134V71|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre2)ELECTRON MICROSCOPY2076
146BY1|1|AVE. coli pH03H9 complexX-RAY DIFFRACTION3.9476
156BY1|1|BVE. coli pH03H9 complexX-RAY DIFFRACTION3.9476
164V79|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post3b)ELECTRON MICROSCOPY1576
176BY1|1|AWE. coli pH03H9 complexX-RAY DIFFRACTION3.9476
186BY1|1|BWE. coli pH03H9 complexX-RAY DIFFRACTION3.9476
194V76|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post2a)ELECTRON MICROSCOPY1776
204V7A|1|A1E. coli 70S-fMetVal-tRNAVal post-translocation complex (post4)ELECTRON MICROSCOPY976
214V78|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post3a)ELECTRON MICROSCOPY2076
224V75|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic post-translocation state (post1)ELECTRON MICROSCOPY1276
236BY1|1|AYE. coli pH03H9 complexX-RAY DIFFRACTION3.9476
244V6Y|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1a)ELECTRON MICROSCOPY1276
254V6Z|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1b)ELECTRON MICROSCOPY1276
266ND6|1|1yCrystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-RAY DIFFRACTION2.8574
276OF1|1|1yCrystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-RAY DIFFRACTION2.873
286CAE|1|1yCrystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.674
296O97|1|1yCrystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-RAY DIFFRACTION2.7573
306O97|1|2yCrystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolutionX-RAY DIFFRACTION2.7573
316OF1|1|2yCrystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolutionX-RAY DIFFRACTION2.873
326CAE|1|2yCrystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolutionX-RAY DIFFRACTION2.673
336ND6|1|2yCrystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolutionX-RAY DIFFRACTION2.8573
345IBB|1|3KStructure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-siteX-RAY DIFFRACTION2.9670
355IBB|1|3LStructure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-siteX-RAY DIFFRACTION2.9671
364V72|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre4)ELECTRON MICROSCOPY1376
376N1D|1|APTNX-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid StateX-RAY DIFFRACTION3.276
386N1D|1|BPTNX-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid StateX-RAY DIFFRACTION3.276
394V70|1|A1E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre3)ELECTRON MICROSCOPY1776
407B5K|1|9E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain.ELECTRON MICROSCOPY2.976
414V74|1|A170S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre5b)ELECTRON MICROSCOPY1776

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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