RNA 3D Hub //

Equivalence class NR_2.5_10157.89 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
14YBB|1|DB (rep)5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001High-resolution structure of the Escherichia coli ribosomeX-ray diffraction2.12015-03-18
24YBB|1|CB5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001High-resolution structure of the Escherichia coli ribosomeX-ray diffraction2.12015-03-18
37K00|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of the Bacterial Ribosome at 2 Angstrom ResolutionElectron microscopy1.982020-09-23
46XZ7|1|B5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).Electron microscopy2.12020-07-22
57LVK|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Cfr-modified 50S subunit from Escherichia coliElectron microscopy2.22021-12-15
66PJ6|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001High resolution cryo-EM structure of E.coli 50SElectron microscopy2.22020-01-22
77N1P|1|55S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformationElectron microscopy2.332021-07-14
87PJS|1|B5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001Structure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C)Electron microscopy2.352021-10-20
97O1A|1|BB5S ribosomal RNARibosomal RNA 5SEscherichia coli K-12BacteriaRF00001Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophanElectron microscopy2.42021-09-01
107S1H|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Wild-type Escherichia coli ribosome with antibiotic linezolidElectron microscopy2.352021-11-17
117S1K|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Cfr-modified Escherichia coli stalled ribosome with antibiotic radezolidElectron microscopy2.422022-01-19
127BL4|1|B5S ribosomal RNA5S ribosomal RNAEscherichia coli K-12BacteriaRF00001in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particleElectron microscopy2.42021-05-12
137S1J|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Wild-type Escherichia coli ribosome with antibiotic radezolidElectron microscopy2.472022-03-02
147S1G|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001wild-type Escherichia coli stalled ribosome with antibiotic linezolidElectron microscopy2.482021-11-17
157S1I|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Wild-type Escherichia coli stalled ribosome with antibiotic radezolidElectron microscopy2.482022-03-02
166PC6|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound 47Electron microscopy2.52020-06-17
176PCR|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound 40oElectron microscopy2.52020-06-17
186PC7|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound 46Electron microscopy2.52020-06-17

Release history

Release3.2203.221
Date2022-03-022022-03-09

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_2.5_10157.89NR_2.5_10157.883.220(16) 7K00|1|b, 7BL4|1|B, 6XZ7|1|B, 6PJ6|1|J, 6PCR|1|J, 6PC7|1|J, 6PC6|1|J, 4YBB|1|DB, 4YBB|1|CB, 7S1K|1|J, 7S1H|1|J, 7S1G|1|J, 7PJS|1|B, 7O1A|1|BB, 7N1P|1|5, 7LVK|1|J(2) 7S1I|1|J, 7S1J|1|J(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_2.5_10157.89NR_2.5_10157.903.222(18) 4YBB|1|CB, 7S1J|1|J, 7S1I|1|J, 7S1H|1|J, 7S1G|1|J, 7PJS|1|B, 7O1A|1|BB, 7N1P|1|5, 7LVK|1|J, 7K00|1|b, 7BL4|1|B, 6XZ7|1|B, 6PJ6|1|J, 6PCR|1|J, 6PC7|1|J, 6PC6|1|J, 4YBB|1|DB, 7S1K|1|J(0) (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
17BL4|1|Bin vitro reconstituted 50S-ObgE-GMPPNP-RsfS particleELECTRON MICROSCOPY2.4119
26PC7|1|JE. coli 50S ribosome bound to compound 46ELECTRON MICROSCOPY2.5118
36PC6|1|JE. coli 50S ribosome bound to compound 47ELECTRON MICROSCOPY2.5118
46PCR|1|JE. coli 50S ribosome bound to compound 40oELECTRON MICROSCOPY2.5118
57S1J|1|JWild-type Escherichia coli ribosome with antibiotic radezolidELECTRON MICROSCOPY2.47118
67S1K|1|JCfr-modified Escherichia coli stalled ribosome with antibiotic radezolidELECTRON MICROSCOPY2.42118
77S1H|1|JWild-type Escherichia coli ribosome with antibiotic linezolidELECTRON MICROSCOPY2.35118
87S1G|1|Jwild-type Escherichia coli stalled ribosome with antibiotic linezolidELECTRON MICROSCOPY2.48118
97S1I|1|JWild-type Escherichia coli stalled ribosome with antibiotic radezolidELECTRON MICROSCOPY2.48118
107O1A|1|BBCryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophanELECTRON MICROSCOPY2.4120
116XZ7|1|BE. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).ELECTRON MICROSCOPY2.1120
127K00|1|bStructure of the Bacterial Ribosome at 2 Angstrom ResolutionELECTRON MICROSCOPY1.98119
137N1P|1|5Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformationELECTRON MICROSCOPY2.33120
147LVK|1|JCfr-modified 50S subunit from Escherichia coliELECTRON MICROSCOPY2.2118
156PJ6|1|JHigh resolution cryo-EM structure of E.coli 50SELECTRON MICROSCOPY2.2118
164YBB|1|CBHigh-resolution structure of the Escherichia coli ribosomeX-RAY DIFFRACTION2.1118
174YBB|1|DBHigh-resolution structure of the Escherichia coli ribosomeX-RAY DIFFRACTION2.1120
187PJS|1|BStructure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C)ELECTRON MICROSCOPY2.35120
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