RNA 3D Hub //

Equivalence class NR_3.5_90633.26 Current

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
14WF9|1|X (rep)Large subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with telithromycinX-ray diffraction3.4327122015-10-21
24WFA|1|XLarge subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with linezolidX-ray diffraction3.3927112015-10-21
34WFB|1|XLarge subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with BC-3205X-ray diffraction3.4327072015-10-21
45NRG|1|XLarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541The crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with RB02X-ray diffraction3.4427102017-08-09
58P2G|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF02541Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane with a tRNA in pe/E chimeric stateElectron microscopy2.0228442024-05-01
69GHG|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF02541Staphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)Electron microscopy2.2228482025-03-26
76S0Z|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Erythromycin Resistant Staphylococcus aureus 50S ribosome (delta R88 A89 uL22) in complex with erythromycin.Electron microscopy2.329052019-08-21
89QEH|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureus subsp. aureus USA300BacteriaRF02541Cryo-EM structure of the A2085-methylated 50S ribosome of a MLSb resistant S. aureus strain "MNY196" in complex with solithromycinElectron microscopy2.0826162025-06-04
98P2F|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF02541Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane in post-translocational stateElectron microscopy2.4428442024-05-01
108P2H|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF02541Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid with a tRNA in pe/E chimeric stateElectron microscopy2.4928442024-05-01
118Y38|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Cryo-EM structure of Staphylococcus aureus 70S ribosome (strain 15B196) in complex with MCX-190.Electron microscopy2.5828852024-07-24
128Y37|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Cryo-EM structure of Staphylococcus aureus (15B196) 50S ribosome in complex with MCX-190.Electron microscopy2.5328842024-07-24
137ASM|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Staphylococcus aureus 50S after 30 minutes incubation at 37CElectron microscopy2.4828342021-11-17
149QEG|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureus subsp. aureus USA300BacteriaRF02541Cryo-EM structure of the 70S ribosome of a MLSb sensitive S. aureus strain "KES34" in complex with solithromycinElectron microscopy2.2125862025-06-04
159GHH|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF02541Staphylococcus aureus FusB bound to the large subunit of the S. aureus 70S ribosome (FusB-Sa70S:LSU)Electron microscopy2.728482025-03-26
168Y36|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541cryo-EM structure of Staphylococcus aureus(ATCC 29213) 50S ribosome in complex with MCX-190.Electron microscopy2.6528852024-07-24
176HMA|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Improved model derived from cryo-EM map of Staphylococcus aureus large ribosomal subunitElectron microscopy2.6528342018-11-14
186S0X|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Erythromycin Resistant Staphylococcus aureus 70S ribosome (delta R88 A89 uL22) in complex with erythromycin.Electron microscopy2.4229052019-08-21
195NGM|1|AALarge subunit ribosomal RNA23S Ribosomal RNAStaphylococcus aureusBacteriaRF025412.9S structure of the 70S ribosome composing the S. aureus 100S complexElectron microscopy2.929052017-10-04
207NHL|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF02541VgaA-LC, an antibiotic resistance ABCF, in complex with 70S ribosome from Staphylococcus aureusElectron microscopy3.129142021-05-05
217ASP|1|YLarge subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Staphylococcus aureus 70S after 50 minutes incubation at 37CElectron microscopy2.8627232021-11-17
227NHM|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF0254170S ribosome from Staphylococcus aureusElectron microscopy3.128242021-05-05
236YEF|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureus subsp. aureus NCTC 8325BacteriaRF0254170S initiation complex with assigned rRNA modifications from Staphylococcus aureusElectron microscopy3.228812021-01-27
247P48|1|ALarge subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Staphylococcus aureus ribosome in complex with Sal(B)Electron microscopy2.926612022-02-02
257ASN|1|ALarge subunit ribosomal RNA23SStaphylococcus aureusBacteriaRF02541Staphylococcus aureus 50S after 30 minutes incubation a 37CElectron microscopy2.7327422021-11-17
267TTW|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF0254150S ribosomal subunit from Staphylococcus aureus containing double mutation in uL3 imparting linezolid resistanceElectron microscopy2.926902022-07-06
276WQN|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with the antibiotic, contezolidElectron microscopy2.926872020-06-03
287ASO|1|YLarge subunit ribosomal RNA23SStaphylococcus aureusBacteriaRF02541Staphylococcus aureus 70S after 30 minutes incubation at 37CElectron microscopy3.1127202021-11-17
297TTU|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF0254150S ribosomal subunit from Staphylococcus aureus (Strain ATCC43300)Electron microscopy326842022-07-06
306WQQ|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with the antibiotic, radezolidElectron microscopy3.126982020-06-03
316WRU|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with an isomer of the tedizolidElectron microscopy3.126652020-06-03
326WRS|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with the antibiotic, tedizolidElectron microscopy3.226982020-06-03
336DDG|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Structure of the 50S ribosomal subunit from Methicillin Resistant Staphylococcus aureus in complex with the oxazolidinone antibiotic LZD-6Electron microscopy3.126462019-03-20
346DDD|1|1Large subunit ribosomal RNA23S rRNAStaphylococcus aureusBacteriaRF02541Structure of the 50S ribosomal subunit from Methicillin Resistant Staphylococcus aureus in complex with the oxazolidinone antibiotic LZD-5Electron microscopy3.126462019-03-20
356S12|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Erythromycin Resistant Staphylococcus aureus 50S ribosome (delta R88 A89 uL22).Electron microscopy3.229052019-08-21
366SJ6|1|ALarge subunit ribosomal RNA23S ribosomal RNAStaphylococcus aureusBacteriaRF02541Cryo-EM structure of 50S-RsfS complex from Staphylococcus aureusElectron microscopy3.2325852020-04-08

Release history

Release3.3903.3913.392
Date2025-06-042025-06-112025-06-18

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

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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
16S0X|1|AErythromycin Resistant Staphylococcus aureus 70S ribosome (delta R88 A89 uL22) in complex with erythromycin.ELECTRON MICROSCOPY2.422905
26S0Z|1|AErythromycin Resistant Staphylococcus aureus 50S ribosome (delta R88 A89 uL22) in complex with erythromycin.ELECTRON MICROSCOPY2.32905
36S12|1|AErythromycin Resistant Staphylococcus aureus 50S ribosome (delta R88 A89 uL22).ELECTRON MICROSCOPY3.22905
47ASO|1|YStaphylococcus aureus 70S after 30 minutes incubation at 37CELECTRON MICROSCOPY3.112720
56WQN|1|1Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with the antibiotic, contezolidELECTRON MICROSCOPY2.92687
67TTU|1|150S ribosomal subunit from Staphylococcus aureus (Strain ATCC43300)ELECTRON MICROSCOPY32684
77TTW|1|150S ribosomal subunit from Staphylococcus aureus containing double mutation in uL3 imparting linezolid resistanceELECTRON MICROSCOPY2.92690
86WRS|1|1Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with the antibiotic, tedizolidELECTRON MICROSCOPY3.22698
96WQQ|1|1Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with the antibiotic, radezolidELECTRON MICROSCOPY3.12698
106WRU|1|1Structure of the 50S subunit of the ribosome from Methicillin Resistant Staphylococcus aureus in complex with an isomer of the tedizolidELECTRON MICROSCOPY3.12665
116YEF|1|A70S initiation complex with assigned rRNA modifications from Staphylococcus aureusELECTRON MICROSCOPY3.22881
127P48|1|AStaphylococcus aureus ribosome in complex with Sal(B)ELECTRON MICROSCOPY2.92661
138Y38|1|ACryo-EM structure of Staphylococcus aureus 70S ribosome (strain 15B196) in complex with MCX-190.ELECTRON MICROSCOPY2.582885
148Y37|1|ACryo-EM structure of Staphylococcus aureus (15B196) 50S ribosome in complex with MCX-190.ELECTRON MICROSCOPY2.532884
158Y36|1|Acryo-EM structure of Staphylococcus aureus(ATCC 29213) 50S ribosome in complex with MCX-190.ELECTRON MICROSCOPY2.652885
166DDD|1|1Structure of the 50S ribosomal subunit from Methicillin Resistant Staphylococcus aureus in complex with the oxazolidinone antibiotic LZD-5ELECTRON MICROSCOPY3.12646
176DDG|1|1Structure of the 50S ribosomal subunit from Methicillin Resistant Staphylococcus aureus in complex with the oxazolidinone antibiotic LZD-6ELECTRON MICROSCOPY3.12646
184WFB|1|XThe crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with BC-3205X-RAY DIFFRACTION3.432707
194WF9|1|XThe crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with telithromycinX-RAY DIFFRACTION3.432712
204WFA|1|XThe crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with linezolidX-RAY DIFFRACTION3.392711
215NRG|1|XThe crystal structure of the large ribosomal subunit of Staphylococcus aureus in complex with RB02X-RAY DIFFRACTION3.442710
227NHL|1|AVgaA-LC, an antibiotic resistance ABCF, in complex with 70S ribosome from Staphylococcus aureusELECTRON MICROSCOPY3.12914
237NHM|1|A70S ribosome from Staphylococcus aureusELECTRON MICROSCOPY3.12824
248P2H|1|AStaphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid with a tRNA in pe/E chimeric stateELECTRON MICROSCOPY2.492844
258P2G|1|AStaphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane with a tRNA in pe/E chimeric stateELECTRON MICROSCOPY2.022844
268P2F|1|AStaphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane in post-translocational stateELECTRON MICROSCOPY2.442844
279GHG|1|AStaphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)ELECTRON MICROSCOPY2.222848
289GHH|1|AStaphylococcus aureus FusB bound to the large subunit of the S. aureus 70S ribosome (FusB-Sa70S:LSU)ELECTRON MICROSCOPY2.72848
299QEG|1|ACryo-EM structure of the 70S ribosome of a MLSb sensitive S. aureus strain "KES34" in complex with solithromycinELECTRON MICROSCOPY2.212586
309QEH|1|ACryo-EM structure of the A2085-methylated 50S ribosome of a MLSb resistant S. aureus strain "MNY196" in complex with solithromycinELECTRON MICROSCOPY2.082616
315NGM|1|AA2.9S structure of the 70S ribosome composing the S. aureus 100S complexELECTRON MICROSCOPY2.92905
327ASM|1|AStaphylococcus aureus 50S after 30 minutes incubation at 37CELECTRON MICROSCOPY2.482834
336HMA|1|AImproved model derived from cryo-EM map of Staphylococcus aureus large ribosomal subunitELECTRON MICROSCOPY2.652834
347ASP|1|YStaphylococcus aureus 70S after 50 minutes incubation at 37CELECTRON MICROSCOPY2.862723
356SJ6|1|ACryo-EM structure of 50S-RsfS complex from Staphylococcus aureusELECTRON MICROSCOPY3.232585
367ASN|1|AStaphylococcus aureus 50S after 30 minutes incubation a 37CELECTRON MICROSCOPY2.732742

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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