NR_4.0_08124.1

Members (38)
History
Heat map

#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	Date
1	4IOA\|1\|X (rep)	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-ray diffraction	3.2	2013-03-06
2	4IO9\|1\|X	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-ray diffraction	3.2	2013-03-06
3	4IOC\|1\|X	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of compound 4f bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-ray diffraction	3.6	2013-03-06
4	2ZJR\|1\|X	Large subunit ribosomal RNA	ribosomal 23S RNA	Deinococcus radiodurans	Bacteria	RF02541	Refined native structure of the large ribosomal subunit (50S) from Deinococcus radiodurans	X-ray diffraction	2.91	2008-06-17
5	3CF5\|1\|X	Large subunit ribosomal RNA	RRNA-23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radiodurans	X-ray diffraction	3.3	2008-06-17
6	2ZJQ\|1\|X	Large subunit ribosomal RNA	ribosomal 23S RNA	Deinococcus radiodurans	Bacteria	RF02541	Interaction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunit	X-ray diffraction	3.3	2008-06-17
7	2ZJP\|1\|X	Large subunit ribosomal RNA	RIBOSOMAL 23S RNA	Deinococcus radiodurans	Bacteria	RF02541	Thiopeptide antibiotic Nosiheptide bound to the large ribosomal subunit of Deinococcus radiodurans	X-ray diffraction	3.7	2008-06-17
8	3DLL\|1\|X	Large subunit ribosomal RNA	rRNA-23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning	X-ray diffraction	3.5	2008-09-16
9	2AAR\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Structure of trigger factor binding domain in biologically homologous complex with eubacterial ribosome.	X-ray diffraction	3.5	2005-08-23
10	2OGM\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-571519	X-ray diffraction	3.5	2007-05-01
11	3PIO\|1\|X	Large subunit ribosomal RNA	RIBOSOMAL 23S RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit	X-ray diffraction	3.25	2011-02-23
12	3JQ4\|1\|A	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The structure of the complex of the large ribosomal subunit from D. Radiodurans with the antibiotic lankacidin	X-ray diffraction	3.52	2010-09-08
13	2D3O\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	Structure of Ribosome Binding Domain of the Trigger Factor on the 50S ribosomal subunit from D. radiodurans	X-ray diffraction	3.35	2005-12-06
14	1Y69\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans	X-ray diffraction	3.33	2005-03-01
15	3PIP\|1\|X	Large subunit ribosomal RNA	RIBOSOMAL 23S RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit	X-ray diffraction	3.45	2011-02-23
16	1JZY\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-ray diffraction	3.5	2001-10-26
17	2OGO\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative retapamulin (SB-275833)	X-ray diffraction	3.66	2007-05-01
18	1K01\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-ray diffraction	3.5	2001-10-26
19	1JZX\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-ray diffraction	3.1	2001-10-26
20	1JZZ\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-ray diffraction	3.8	2001-10-26
21	1J5A\|1\|A	Large subunit ribosomal RNA	23S RRNA	Deinococcus radiodurans	Bacteria	RF02541	STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIA	X-ray diffraction	3.5	2002-03-08
22	2O44\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide josamycin	X-ray diffraction	3.3	2007-12-04
23	2OGN\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-280080	X-ray diffraction	3.56	2007-05-01
24	1NWX\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773	X-ray diffraction	3.5	2003-03-18
25	1OND\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TROLEANDOMYCIN MACROLIDE ANTIBIOTIC	X-ray diffraction	3.4	2003-04-15
26	1NWY\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RRNA	Deinococcus radiodurans	Bacteria	RF02541	COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCIN	X-ray diffraction	3.3	2003-03-18
27	1NKW\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans	X-ray diffraction	3.1	2003-02-11
28	3FWO\|1\|A	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	The large ribosomal subunit from Deinococcus radiodurans complexed with Methymycin	X-ray diffraction	3.71	2010-01-19
29	1NJO\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA, RNA ACC(Puromycin)	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a short substrate analog ACCPuromycin (ACCP)	X-ray diffraction	3.7	2003-02-11
30	1NJP\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM)	X-ray diffraction	3.5	2003-02-11
31	1P9X\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TELITHROMYCIN KETOLIDE ANTIBIOTIC	X-ray diffraction	3.4	2003-08-05
32	1NJM\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM) and the antibiotic sparsomycin	X-ray diffraction	3.6	2003-02-11
33	1NJN\|1\|0	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with the antibiotic sparsomycin	X-ray diffraction	3.7	2003-02-11
34	2O43\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide erythromycylamine	X-ray diffraction	3.6	2007-12-04
35	1SM1\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN	X-ray diffraction	3.42	2004-08-03
36	1XBP\|1\|0	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin	X-ray diffraction	3.5	2005-03-01
37	1Z58\|1\|2	Large subunit ribosomal RNA	23S RIBOSOMAL RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of a complex of the ribosome large subunit with rapamycin	X-ray diffraction	3.8	2005-06-28
38	2O45\|1\|A	Large subunit ribosomal RNA	23S rRNA	Deinococcus radiodurans	Bacteria	RF02541	Structure of the 23S rRNA of the large ribosomal subunit from Deinococcus Radiodurans in complex with the macrolide RU-69874	X-ray diffraction	3.6	2007-12-04

Release history

Release	2.0
Date	2014-12-05

Parents

This class	Parent classes	Release id	Intersection	Added to this class	Only in parent

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This class	Descendant classes	Release id	Intersection	Only in this class	Added to child

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).

#S	PDB	Title	Method	Resolution	Length
1	2D3O\|1\|0	Title: Structure of Ribosome Binding Domain of the Trigger Factor on the 50S ribosomal subunit from D. radiodurans	X-RAY DIFFRACTION	3.35	2802
2	3PIP\|1\|X	Title: Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit	X-RAY DIFFRACTION	3.45	2644
3	3PIO\|1\|X	Title: Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit	X-RAY DIFFRACTION	3.25	2657
4	4IOC\|1\|X	Title: Crystal structure of compound 4f bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	3.6	2686
5	4IO9\|1\|X	Title: Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	3.2	2686
6	4IOA\|1\|X	Title: Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	3.2	2686
7	2ZJR\|1\|X	Title: Refined native structure of the large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	2.91	2686
8	2ZJP\|1\|X	Title: Thiopeptide antibiotic Nosiheptide bound to the large ribosomal subunit of Deinococcus radiodurans	X-RAY DIFFRACTION	3.7	2686
9	3CF5\|1\|X	Title: Thiopeptide antibiotic Thiostrepton bound to the large ribosomal subunit of Deinococcus radiodurans	X-RAY DIFFRACTION	3.3	2686
10	2ZJQ\|1\|X	Title: Interaction of L7 with L11 induced by Microccocin binding to the Deinococcus radiodurans 50S subunit	X-RAY DIFFRACTION	3.3	2686
11	3DLL\|1\|X	Title: The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning	X-RAY DIFFRACTION	3.5	2686
12	3FWO\|1\|A	Title: The large ribosomal subunit from Deinococcus radiodurans complexed with Methymycin	X-RAY DIFFRACTION	3.71	2765
13	2O44\|1\|A	Title: Structure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide josamycin	X-RAY DIFFRACTION	3.3	2766
14	2O43\|1\|A	Title: Structure of 23S rRNA of the large ribosomal subunit from Deinococcus radiodurans in complex with the macrolide erythromycylamine	X-RAY DIFFRACTION	3.6	2766
15	2OGN\|1\|0	Title: The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-280080	X-RAY DIFFRACTION	3.56	2766
16	2OGM\|1\|0	Title: The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative SB-571519	X-RAY DIFFRACTION	3.5	2766
17	2OGO\|1\|0	Title: The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative retapamulin (SB-275833)	X-RAY DIFFRACTION	3.66	2765
18	2AAR\|1\|0	Title: Structure of trigger factor binding domain in biologically homologous complex with eubacterial ribosome.	X-RAY DIFFRACTION	3.5	2766
19	3JQ4\|1\|A	Title: The structure of the complex of the large ribosomal subunit from D. Radiodurans with the antibiotic lankacidin	X-RAY DIFFRACTION	3.52	2765
20	1P9X\|1\|0	Title: THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TELITHROMYCIN KETOLIDE ANTIBIOTIC	X-RAY DIFFRACTION	3.4	2738
21	1SM1\|1\|0	Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN	X-RAY DIFFRACTION	3.42	2766
22	1XBP\|1\|0	Title: Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin	X-RAY DIFFRACTION	3.5	2766
23	1OND\|1\|0	Title: THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TROLEANDOMYCIN MACROLIDE ANTIBIOTIC	X-RAY DIFFRACTION	3.4	2765
24	1NKW\|1\|0	Title: Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans	X-RAY DIFFRACTION	3.1	2766
25	1NWX\|1\|0	Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773	X-RAY DIFFRACTION	3.5	2766
26	1NWY\|1\|0	Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCIN	X-RAY DIFFRACTION	3.3	2766
27	1NJP\|1\|0	Title: The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM)	X-RAY DIFFRACTION	3.5	2766
28	1NJO\|1\|0	Title: The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a short substrate analog ACCPuromycin (ACCP)	X-RAY DIFFRACTION	3.7	2766
29	1NJN\|1\|0	Title: The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with the antibiotic sparsomycin	X-RAY DIFFRACTION	3.7	2766
30	1NJM\|1\|0	Title: The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM) and the antibiotic sparsomycin	X-RAY DIFFRACTION	3.6	2766
31	1J5A\|1\|A	Title: STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIA	X-RAY DIFFRACTION	3.5	2774
32	1JZZ\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.8	2774
33	1JZY\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.5	2774
34	1JZX\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.1	2774
35	1K01\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.5	2774
36	1Y69\|1\|0	Title: RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans	X-RAY DIFFRACTION	3.33	2766
37	1Z58\|1\|2	Title: Crystal structure of a complex of the ribosome large subunit with rapamycin	X-RAY DIFFRACTION	3.8	2766
38	2O45\|1\|A	Title: Structure of the 23S rRNA of the large ribosomal subunit from Deinococcus Radiodurans in complex with the macrolide RU-69874	X-RAY DIFFRACTION	3.6	2766

Coloring options: Nucleotide numbers

Equivalence class NR_4.0_08124.1 Obsolete

Release history

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