RNA 3D Hub //

Equivalence class NR_all_88987.1 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
14IOA|1|X (rep)Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radioduransX-ray diffraction3.22013-03-06
24IO9|1|XLarge subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radioduransX-ray diffraction3.22013-03-06
34IOC|1|XLarge subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541Crystal structure of compound 4f bound to large ribosomal subunit (50S) from Deinococcus radioduransX-ray diffraction3.62013-03-06
42ZJR|1|XLarge subunit ribosomal RNAribosomal 23S RNADeinococcus radioduransBacteriaRF02541Refined native structure of the large ribosomal subunit (50S) from Deinococcus radioduransX-ray diffraction2.912008-06-17
53CF5|1|XLarge subunit ribosomal RNARRNA-23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radioduransX-ray diffraction3.32008-06-17
62ZJQ|1|XLarge subunit ribosomal RNAribosomal 23S RNADeinococcus radioduransBacteriaRF02541Interaction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunitX-ray diffraction3.32008-06-17
72ZJP|1|XLarge subunit ribosomal RNARIBOSOMAL 23S RNADeinococcus radioduransBacteriaRF02541Thiopeptide antibiotic Nosiheptide bound to the large ribosomal subunit of Deinococcus radioduransX-ray diffraction3.72008-06-17
83DLL|1|XLarge subunit ribosomal RNArRNA-23S ribosomal RNADeinococcus radioduransBacteriaRF02541The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioningX-ray diffraction3.52008-09-16
92AAR|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541Structure of trigger factor binding domain in biologically homologous complex with eubacterial ribosome.X-ray diffraction3.52005-08-23
102OGM|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-571519X-ray diffraction3.52007-05-01
113PIO|1|XLarge subunit ribosomal RNARIBOSOMAL 23S RNADeinococcus radioduransBacteriaRF02541Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunitX-ray diffraction3.252011-02-23
123JQ4|1|ALarge subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The structure of the complex of the large ribosomal subunit from D. Radiodurans with the antibiotic lankacidinX-ray diffraction3.522010-09-08
132D3O|1|0Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541Structure of Ribosome Binding Domain of the Trigger Factor on the 50S ribosomal subunit from D. radioduransX-ray diffraction3.352005-12-06
141Y69|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radioduransX-ray diffraction3.332005-03-01
153PIP|1|XLarge subunit ribosomal RNARIBOSOMAL 23S RNADeinococcus radioduransBacteriaRF02541Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunitX-ray diffraction3.452011-02-23
162OGO|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative retapamulin (SB-275833)X-ray diffraction3.662007-05-01
171JZY|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-ray diffraction3.52001-10-26
181K01|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-ray diffraction3.52001-10-26
191JZX|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-ray diffraction3.12001-10-26
201JZZ|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-ray diffraction3.82001-10-26
211J5A|1|ALarge subunit ribosomal RNA23S RRNADeinococcus radioduransBacteriaRF02541STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIAX-ray diffraction3.52002-03-08
222O44|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide josamycinX-ray diffraction3.32007-12-04
232OGN|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-280080X-ray diffraction3.562007-05-01
241NWX|1|0Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773X-ray diffraction3.52003-03-18
251OND|1|0Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TROLEANDOMYCIN MACROLIDE ANTIBIOTICX-ray diffraction3.42003-04-15
261NWY|1|0Large subunit ribosomal RNA23S RIBOSOMAL RRNADeinococcus radioduransBacteriaRF02541COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCINX-ray diffraction3.32003-03-18
271NKW|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541Crystal Structure Of The Large Ribosomal Subunit From Deinococcus RadioduransX-ray diffraction3.12003-02-11
283FWO|1|ALarge subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541The large ribosomal subunit from Deinococcus radiodurans complexed with MethymycinX-ray diffraction3.712010-01-19
291NJO|1|0Large subunit ribosomal RNA23S ribosomal RNA, RNA ACC(Puromycin)Deinococcus radioduransBacteriaRF02541The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a short substrate analog ACCPuromycin (ACCP)X-ray diffraction3.72003-02-11
301P9X|1|0Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TELITHROMYCIN KETOLIDE ANTIBIOTICX-ray diffraction3.42003-08-05
311NJP|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM)X-ray diffraction3.52003-02-11
321NJM|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM) and the antibiotic sparsomycinX-ray diffraction3.62003-02-11
331NJN|1|0Large subunit ribosomal RNA23S ribosomal RNADeinococcus radioduransBacteriaRF02541The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with the antibiotic sparsomycinX-ray diffraction3.72003-02-11
342O43|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide erythromycylamineX-ray diffraction3.62007-12-04
351SM1|1|0Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTINX-ray diffraction3.422004-08-03
361XBP|1|0Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with TiamulinX-ray diffraction3.52005-03-01
371Z58|1|2Large subunit ribosomal RNA23S RIBOSOMAL RNADeinococcus radioduransBacteriaRF02541Crystal structure of a complex of the ribosome large subunit with rapamycinX-ray diffraction3.82005-06-28
382O45|1|ALarge subunit ribosomal RNA23S rRNADeinococcus radioduransBacteriaRF02541Structure of the 23S rRNA of the large ribosomal subunit from Deinococcus Radiodurans in complex with the macrolide RU-69874X-ray diffraction3.62007-12-04

Release history

Release2.02.12.22.32.42.52.62.72.82.92.102.112.122.132.142.152.162.172.182.192.202.212.222.232.242.252.262.272.282.292.302.312.322.332.34
Date2014-12-052014-12-122014-12-192014-12-262015-01-022015-01-092015-01-162015-01-232015-01-302015-02-062015-02-132015-02-202015-02-272015-03-062015-03-132015-03-202015-03-272015-04-032015-04-102015-04-172015-04-242015-05-012015-05-082015-05-152015-05-222015-05-292015-06-052015-06-122015-06-192015-06-262015-07-032015-07-102015-07-172015-07-242015-07-31

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_all_88987.1NR_20.0_88987.22.35(38) 1J5A|1|A, 1JZX|1|A, 1JZY|1|A, 1JZZ|1|A, 1K01|1|A, 1NJM|1|0, 1NJN|1|0, 1NJO|1|0, 1NJP|1|0, 1NKW|1|0, 1NWX|1|0, 1NWY|1|0, 1OND|1|0, 1P9X|1|0, 1SM1|1|0, 1XBP|1|0, 1Y69|1|0, 1Z58|1|2, 2AAR|1|0, 2D3O|1|0, 2O43|1|A, 2O44|1|A, 2O45|1|A, 2OGM|1|0, 2OGN|1|0, 2OGO|1|0, 2ZJP|1|X, 2ZJQ|1|X, 2ZJR|1|X, 3CF5|1|X, 3DLL|1|X, 3FWO|1|A, 3JQ4|1|A, 3PIO|1|X, 3PIP|1|X, 4IO9|1|X, 4IOA|1|X, 4IOC|1|X(0) (1) 4U67|1|X
NR_all_88987.1NR_3.0_88987.22.35(1) 2ZJR|1|X(37) 1J5A|1|A, 1JZX|1|A, 1JZY|1|A, 1JZZ|1|A, 1K01|1|A, 1NJM|1|0, 1NJN|1|0, 1NJO|1|0, 1NJP|1|0, 1NKW|1|0, 1NWX|1|0, 1NWY|1|0, 1OND|1|0, 1P9X|1|0, 1SM1|1|0, 1XBP|1|0, 1Y69|1|0, 1Z58|1|2, 2AAR|1|0, 2D3O|1|0, 2O43|1|A, 2O44|1|A, 2O45|1|A, 2OGM|1|0, 2OGN|1|0, 2OGO|1|0, 2ZJP|1|X, 2ZJQ|1|X, 3CF5|1|X, 3DLL|1|X, 3FWO|1|A, 3JQ4|1|A, 3PIO|1|X, 3PIP|1|X, 4IO9|1|X, 4IOA|1|X, 4IOC|1|X(0)
NR_all_88987.1NR_3.5_88987.22.35(25) 1J5A|1|A, 1JZX|1|A, 1JZY|1|A, 1K01|1|A, 1NJP|1|0, 1NKW|1|0, 1NWX|1|0, 1NWY|1|0, 1OND|1|0, 1P9X|1|0, 1SM1|1|0, 1XBP|1|0, 1Y69|1|0, 2AAR|1|0, 2D3O|1|0, 2O44|1|A, 2OGM|1|0, 2ZJQ|1|X, 2ZJR|1|X, 3CF5|1|X, 3DLL|1|X, 3PIO|1|X, 3PIP|1|X, 4IO9|1|X, 4IOA|1|X(13) 1JZZ|1|A, 1NJM|1|0, 1NJN|1|0, 1NJO|1|0, 1Z58|1|2, 2O43|1|A, 2O45|1|A, 2OGN|1|0, 2OGO|1|0, 2ZJP|1|X, 3FWO|1|A, 3JQ4|1|A, 4IOC|1|X(0)
NR_all_88987.1NR_4.0_88987.22.35(38) 1J5A|1|A, 1JZX|1|A, 1JZY|1|A, 1JZZ|1|A, 1K01|1|A, 1NJM|1|0, 1NJN|1|0, 1NJO|1|0, 1NJP|1|0, 1NKW|1|0, 1NWX|1|0, 1NWY|1|0, 1OND|1|0, 1P9X|1|0, 1SM1|1|0, 1XBP|1|0, 1Y69|1|0, 1Z58|1|2, 2AAR|1|0, 2D3O|1|0, 2O43|1|A, 2O44|1|A, 2O45|1|A, 2OGM|1|0, 2OGN|1|0, 2OGO|1|0, 2ZJP|1|X, 2ZJQ|1|X, 2ZJR|1|X, 3CF5|1|X, 3DLL|1|X, 3FWO|1|A, 3JQ4|1|A, 3PIO|1|X, 3PIP|1|X, 4IO9|1|X, 4IOA|1|X, 4IOC|1|X(0) (1) 4U67|1|X
NR_all_88987.1NR_all_88987.22.35(38) 1J5A|1|A, 1JZX|1|A, 1JZY|1|A, 1JZZ|1|A, 1K01|1|A, 1NJM|1|0, 1NJN|1|0, 1NJO|1|0, 1NJP|1|0, 1NKW|1|0, 1NWX|1|0, 1NWY|1|0, 1OND|1|0, 1P9X|1|0, 1SM1|1|0, 1XBP|1|0, 1Y69|1|0, 1Z58|1|2, 2AAR|1|0, 2D3O|1|0, 2O43|1|A, 2O44|1|A, 2O45|1|A, 2OGM|1|0, 2OGN|1|0, 2OGO|1|0, 2ZJP|1|X, 2ZJQ|1|X, 2ZJR|1|X, 3CF5|1|X, 3DLL|1|X, 3FWO|1|A, 3JQ4|1|A, 3PIO|1|X, 3PIP|1|X, 4IO9|1|X, 4IOA|1|X, 4IOC|1|X(0) (1) 4U67|1|X

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.

#SViewPDBTitleMethodResolutionLength
12D3O|1|0Structure of Ribosome Binding Domain of the Trigger Factor on the 50S ribosomal subunit from D. radioduransX-RAY DIFFRACTION3.352802
23DLL|1|XThe oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioningX-RAY DIFFRACTION3.52686
32ZJQ|1|XInteraction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunitX-RAY DIFFRACTION3.32686
43CF5|1|XThiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radioduransX-RAY DIFFRACTION3.32686
52ZJP|1|XThiopeptide antibiotic Nosiheptide bound to the large ribosomal subunit of Deinococcus radioduransX-RAY DIFFRACTION3.72686
62ZJR|1|XRefined native structure of the large ribosomal subunit (50S) from Deinococcus radioduransX-RAY DIFFRACTION2.912686
74IOC|1|XCrystal structure of compound 4f bound to large ribosomal subunit (50S) from Deinococcus radioduransX-RAY DIFFRACTION3.62686
84IO9|1|XCrystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radioduransX-RAY DIFFRACTION3.22686
94IOA|1|XCrystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radioduransX-RAY DIFFRACTION3.22686
103PIO|1|XCrystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunitX-RAY DIFFRACTION3.252657
113PIP|1|XCrystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunitX-RAY DIFFRACTION3.452644
121Y69|1|0RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radioduransX-RAY DIFFRACTION3.332766
131Z58|1|2Crystal structure of a complex of the ribosome large subunit with rapamycinX-RAY DIFFRACTION3.82766
141K01|1|AStructural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-RAY DIFFRACTION3.52774
151JZX|1|AStructural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-RAY DIFFRACTION3.12774
161JZY|1|AStructural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-RAY DIFFRACTION3.52774
171JZZ|1|AStructural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in EubacteriaX-RAY DIFFRACTION3.82774
181J5A|1|ASTRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIAX-RAY DIFFRACTION3.52774
191NJM|1|0The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM) and the antibiotic sparsomycinX-RAY DIFFRACTION3.62766
201NJN|1|0The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with the antibiotic sparsomycinX-RAY DIFFRACTION3.72766
211NJO|1|0The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a short substrate analog ACCPuromycin (ACCP)X-RAY DIFFRACTION3.72766
221NJP|1|0The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM)X-RAY DIFFRACTION3.52766
231NWY|1|0COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCINX-RAY DIFFRACTION3.32766
241NWX|1|0COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773X-RAY DIFFRACTION3.52766
251NKW|1|0Crystal Structure Of The Large Ribosomal Subunit From Deinococcus RadioduransX-RAY DIFFRACTION3.12766
261OND|1|0THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TROLEANDOMYCIN MACROLIDE ANTIBIOTICX-RAY DIFFRACTION3.42765
271XBP|1|0Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with TiamulinX-RAY DIFFRACTION3.52766
281SM1|1|0COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTINX-RAY DIFFRACTION3.422766
291P9X|1|0THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TELITHROMYCIN KETOLIDE ANTIBIOTICX-RAY DIFFRACTION3.42738
303JQ4|1|AThe structure of the complex of the large ribosomal subunit from D. Radiodurans with the antibiotic lankacidinX-RAY DIFFRACTION3.522765
312AAR|1|0Structure of trigger factor binding domain in biologically homologous complex with eubacterial ribosome.X-RAY DIFFRACTION3.52766
322OGN|1|0The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-280080X-RAY DIFFRACTION3.562766
332OGM|1|0The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-571519X-RAY DIFFRACTION3.52766
342OGO|1|0The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative retapamulin (SB-275833)X-RAY DIFFRACTION3.662765
352O43|1|AStructure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide erythromycylamineX-RAY DIFFRACTION3.62766
362O44|1|AStructure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide josamycinX-RAY DIFFRACTION3.32766
373FWO|1|AThe large ribosomal subunit from Deinococcus radiodurans complexed with MethymycinX-RAY DIFFRACTION3.712765
382O45|1|AStructure of the 23S rRNA of the large ribosomal subunit from Deinococcus Radiodurans in complex with the macrolide RU-69874X-RAY DIFFRACTION3.62766

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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