RNA 3D Hub //

Equivalence class NR_all_76090.16 Current

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
18FR8|1|A (rep)Large subunit ribosomal RNA23S rRNA (3119-MER)Mycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis Rsh bound to a 70S translation initiation complexElectron microscopy2.7631192023-05-17
28WHX|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo- EM structure of Mycobacterium smegmatis 70S ribosome and RafH.Electron microscopy2.830202024-02-28
38V9J|1|ALarge subunit ribosomal RNA23S Ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Msmeg1130 (Balon) (Structure 4)Electron microscopy3.130732024-02-07
48WHY|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo- EM structure of Mycobacterium smegmatis 50S ribosomal subunit (body 1) of 70S ribosome and RafH.Electron microscopy2.730172024-02-28
58V9L|1|ALarge subunit ribosomal RNA23S Ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Msmeg1130 (Balon) and MsmegEF-Tu(GDP) (Composite structure 6)Electron microscopy330732024-02-07
68V9K|1|ALarge subunit ribosomal RNA23S Ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Rv2629 (Balon) (Structure 5)Electron microscopy3.130812024-02-07
78VPK|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and erythromycin:50S-HflX-B-EryElectron microscopy2.6329482025-04-30
88VR4|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and erythromycin:50S-HflX-A-EryElectron microscopy2.831182025-02-19
98VKI|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX:50S-HflX-CElectron microscopy2.9629522025-02-19
108VK7|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX:50S-HflX-BElectron microscopy3.0929502025-02-19
118VK0|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX:50S-HflX-AElectron microscopy3.1431192025-02-19
128VIO|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis HflX bound to a 70S ribosomeElectron microscopy3.2631192025-02-19
137XAM|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Mycobacterium smegmatis 50S ribosomal subunit from Stationary phase of growthElectron microscopy3.530622023-05-03
148WI8|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo- EM structure of Mycobacterium smegmatis 50S ribosomal subunit (body 1) of 70S ribosome, bS1 and RafH.Electron microscopy2.730252024-02-28
158KAB|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Mycobacterium smegmatis 50S ribosomal subunit-HflX complexElectron microscopy3.331112024-07-31
165XYM|1|ALarge subunit ribosomal RNA23S RNAMycolicibacterium smegmatisBacteriaRF02541Large subunit of Mycobacterium smegmatisElectron microscopy3.0826652017-09-27
176DZI|1|ALarge subunit ribosomal RNA23 S rRNA (3119-MER)Mycolicibacterium smegmatisBacteriaRF02541Cryo-EM Structure of Mycobacterium smegmatis 70S C(minus) ribosome 70S-MPY complexElectron microscopy3.4631192018-09-26
188WIB|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo- EM structure of Mycobacterium smegmatis 70S ribosome, E- tRNA and RafH.Electron microscopy3.530222024-02-28
198VRL|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and chloramphenicol:50S-HflX-A-ClmElectron microscopy3.3331192025-02-19
208WI7|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo- EM structure of Mycobacterium smegmatis 70S ribosome, bS1 and RafH.Electron microscopy3.530252024-02-28
215O60|1|ALarge subunit ribosomal RNA23S rRNA, tRNA CCA-end acetylated (Phe)Mycolicibacterium smegmatisBacteriaRF02541Structure of the 50S large ribosomal subunit from Mycobacterium smegmatisElectron microscopy3.1831192017-07-12
228VR8|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and chloramphenicol:50S-HflX-B-ClmElectron microscopy3.2529502025-02-19
238WIC|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Cryo- EM structure of Mycobacterium smegmatis 50S ribosomal subunit (body 1) of 70S ribosome, E- tRNA and RafH.Electron microscopy3.530222024-02-28
246DZP|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541Cryo-EM Structure of Mycobacterium smegmatis C(minus) 50S ribosomal subunitElectron microscopy3.4231192018-10-03
259K10|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541EF-G2 bound 50S ribosome subunit complex of M. smegmatisElectron microscopy3.630622025-07-09
268VKW|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Structure of Mycobacterium smegmatis 50S ribosomal subunit bound to delNTE-HflXElectron microscopy3.4430432025-02-19
278XZ3|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Mycobacterium smegmatis 50S ribosomal subunit with ErythromycinElectron microscopy3.631192024-07-31
289E0P|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541M. smegmatis methylated 70S ribosome structureElectron microscopy3.1731022025-07-16
295ZET|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541M. smegmatis P/P state 50S ribosomal subunitElectron microscopy3.231022018-09-26
307Y41|1|ALarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541Mycobacterium smegmatis 50S ribosomal subunit from Log Phase of growthElectron microscopy4.131192023-05-03
317S0S|1|CLarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541M. tuberculosis ribosomal RNA methyltransferase TlyA bound to M. smegmatis 50S ribosomal subunitElectron microscopy3.0531192022-03-30
329B1Y|1|YLarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541WT strain WT mycobacterial ribosomeElectron microscopy2.4730382025-03-26
335ZEB|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541M. Smegmatis P/P state 70S ribosome structureElectron microscopy3.431022018-09-26
349B24|1|YLarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541WT strain gidB mutant mycobacterial ribosomeElectron microscopy2.4730382025-03-26
359E0N|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541M. smegmatis unmethylated 70S ribosome structureElectron microscopy3.2431022025-07-16
365ZEP|1|ALarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541M. smegmatis hibernating state 70S ribosome structureElectron microscopy3.431022018-09-26
379B1X|1|YLarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541HWS19 strain gidB mutant mycobacterial ribosomeElectron microscopy3.0729542025-03-26
389B1W|1|YLarge subunit ribosomal RNA23S rRNAMycolicibacterium smegmatisBacteriaRF02541HWS19 strain WT mycobacterial ribosomeElectron microscopy3.2629512025-03-26
399K0Z|1|hLarge subunit ribosomal RNA23S ribosomal RNAMycolicibacterium smegmatis MC2 155BacteriaRF02541EF-G2 bound 70S ribosome complex of M. smegmatisElectron microscopy4.730712025-07-09
405O61|1|ALarge subunit ribosomal RNA23S rRNAMycobacterium smegmatisBacteriaRF02541The complete structure of the Mycobacterium smegmatis 70S ribosomeElectron microscopy3.3131192017-07-12

Release history

Release4.0
Date2025-08-13

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

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
18VR4|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and erythromycin:50S-HflX-A-EryELECTRON MICROSCOPY2.83118
28VKW|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to delNTE-HflXELECTRON MICROSCOPY3.443043
38VK0|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX:50S-HflX-AELECTRON MICROSCOPY3.143119
48VRL|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and chloramphenicol:50S-HflX-A-ClmELECTRON MICROSCOPY3.333119
58KAB|1|AMycobacterium smegmatis 50S ribosomal subunit-HflX complexELECTRON MICROSCOPY3.33111
67Y41|1|AMycobacterium smegmatis 50S ribosomal subunit from Log Phase of growthELECTRON MICROSCOPY4.13119
77S0S|1|CM. tuberculosis ribosomal RNA methyltransferase TlyA bound to M. smegmatis 50S ribosomal subunitELECTRON MICROSCOPY3.053119
88XZ3|1|AMycobacterium smegmatis 50S ribosomal subunit with ErythromycinELECTRON MICROSCOPY3.63119
98WHY|1|ACryo- EM structure of Mycobacterium smegmatis 50S ribosomal subunit (body 1) of 70S ribosome and RafH.ELECTRON MICROSCOPY2.73017
108WHX|1|ACryo- EM structure of Mycobacterium smegmatis 70S ribosome and RafH.ELECTRON MICROSCOPY2.83020
118WIB|1|ACryo- EM structure of Mycobacterium smegmatis 70S ribosome, E- tRNA and RafH.ELECTRON MICROSCOPY3.53022
128WIC|1|ACryo- EM structure of Mycobacterium smegmatis 50S ribosomal subunit (body 1) of 70S ribosome, E- tRNA and RafH.ELECTRON MICROSCOPY3.53022
138WI7|1|ACryo- EM structure of Mycobacterium smegmatis 70S ribosome, bS1 and RafH.ELECTRON MICROSCOPY3.53025
148WI8|1|ACryo- EM structure of Mycobacterium smegmatis 50S ribosomal subunit (body 1) of 70S ribosome, bS1 and RafH.ELECTRON MICROSCOPY2.73025
155ZEP|1|AM. smegmatis hibernating state 70S ribosome structureELECTRON MICROSCOPY3.43102
165ZET|1|AM. smegmatis P/P state 50S ribosomal subunitELECTRON MICROSCOPY3.23102
175ZEB|1|AM. Smegmatis P/P state 70S ribosome structureELECTRON MICROSCOPY3.43102
189E0P|1|AM. smegmatis methylated 70S ribosome structureELECTRON MICROSCOPY3.173102
199E0N|1|AM. smegmatis unmethylated 70S ribosome structureELECTRON MICROSCOPY3.243102
208FR8|1|AStructure of Mycobacterium smegmatis Rsh bound to a 70S translation initiation complexELECTRON MICROSCOPY2.763119
215O60|1|AStructure of the 50S large ribosomal subunit from Mycobacterium smegmatisELECTRON MICROSCOPY3.183119
225O61|1|AThe complete structure of the Mycobacterium smegmatis 70S ribosomeELECTRON MICROSCOPY3.313119
236DZI|1|ACryo-EM Structure of Mycobacterium smegmatis 70S C(minus) ribosome 70S-MPY complexELECTRON MICROSCOPY3.463119
246DZP|1|ACryo-EM Structure of Mycobacterium smegmatis C(minus) 50S ribosomal subunitELECTRON MICROSCOPY3.423119
259K0Z|1|hEF-G2 bound 70S ribosome complex of M. smegmatisELECTRON MICROSCOPY4.73071
265XYM|1|ALarge subunit of Mycobacterium smegmatisELECTRON MICROSCOPY3.082665
278VIO|1|AStructure of Mycobacterium smegmatis HflX bound to a 70S ribosomeELECTRON MICROSCOPY3.263119
288V9L|1|ACryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Msmeg1130 (Balon) and MsmegEF-Tu(GDP) (Composite structure 6)ELECTRON MICROSCOPY33073
298V9J|1|ACryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Msmeg1130 (Balon) (Structure 4)ELECTRON MICROSCOPY3.13073
308V9K|1|ACryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Rv2629 (Balon) (Structure 5)ELECTRON MICROSCOPY3.13081
319B1W|1|YHWS19 strain WT mycobacterial ribosomeELECTRON MICROSCOPY3.262951
329B1X|1|YHWS19 strain gidB mutant mycobacterial ribosomeELECTRON MICROSCOPY3.072954
339B24|1|YWT strain gidB mutant mycobacterial ribosomeELECTRON MICROSCOPY2.473038
349B1Y|1|YWT strain WT mycobacterial ribosomeELECTRON MICROSCOPY2.473038
358VPK|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and erythromycin:50S-HflX-B-EryELECTRON MICROSCOPY2.632948
368VR8|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX and chloramphenicol:50S-HflX-B-ClmELECTRON MICROSCOPY3.252950
378VK7|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX:50S-HflX-BELECTRON MICROSCOPY3.092950
388VKI|1|AStructure of Mycobacterium smegmatis 50S ribosomal subunit bound to HflX:50S-HflX-CELECTRON MICROSCOPY2.962952
399K10|1|AEF-G2 bound 50S ribosome subunit complex of M. smegmatisELECTRON MICROSCOPY3.63062
407XAM|1|AMycobacterium smegmatis 50S ribosomal subunit from Stationary phase of growthELECTRON MICROSCOPY3.53062

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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