NR_3.5_08124.2

Members (27)
History
Heat map

#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	Date
1	5DM6\|1\|X (rep)	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans	X-ray diffraction	2.9	2015-11-11
2	4IOA\|1\|X	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
3	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
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	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
8	5DM7\|1\|X	Large subunit ribosomal RNA	23S ribosomal RNA	Deinococcus radiodurans	Bacteria	RF02541	Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with hygromycin A	X-ray diffraction	3	2015-11-11
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	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
13	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
14	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
15	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
16	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
17	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
18	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
19	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
20	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
21	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
22	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
23	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
24	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
25	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
26	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
27	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

Release history

Release	3.0	4.0	5.0
Date	2016-07-25	2016-07-25	2016-07-25

Parents

This class	Parent classes	Release id	Intersection	Added to this class	Only in parent
NR_3.5_08124.2	NR_all_08124.1	3.0	(25) 1NJP\|1\|0, 3PIP\|1\|X, 1JZY\|1\|A, 3DLL\|1\|X, 1SM1\|1\|0, 1NWY\|1\|0, 1NKW\|1\|0, 2AAR\|1\|0, 2ZJR\|1\|X, 2OGM\|1\|0, 4IOA\|1\|X, 1K01\|1\|A, 3PIO\|1\|X, 1J5A\|1\|A, 1OND\|1\|0, 1NWX\|1\|0, 2D3O\|1\|0, 1XBP\|1\|0, 3CF5\|1\|X, 2ZJQ\|1\|X, 4IO9\|1\|X, 1JZX\|1\|A, 1P9X\|1\|0, 1Y69\|1\|0, 2O44\|1\|A	(2) 5DM7\|1\|X, 5DM6\|1\|X	(13) 1NJO\|1\|0, 2OGN\|1\|0, 1Z58\|1\|2, 2OGO\|1\|0, 1NJN\|1\|0, 1NJM\|1\|0, 1JZZ\|1\|A, 3FWO\|1\|A, 3JQ4\|1\|A, 2ZJP\|1\|X, 4IOC\|1\|X, 2O45\|1\|A, 2O43\|1\|A

Children

This class	Descendant classes	Release id	Intersection	Only in this class	Added to child
NR_3.5_08124.2	NR_3.5_93399.1	6.0	(2) 1NJP\|1\|0, 5DM6\|1\|X	(25) 2AAR\|1\|0, 1K01\|1\|A, 3DLL\|1\|X, 1NWX\|1\|0, 3PIP\|1\|X, 2O44\|1\|A, 1OND\|1\|0, 4IOA\|1\|X, 1J5A\|1\|A, 2ZJQ\|1\|X, 1SM1\|1\|0, 1JZY\|1\|A, 3CF5\|1\|X, 1Y69\|1\|0, 1NKW\|1\|0, 3PIO\|1\|X, 2D3O\|1\|0, 1NWY\|1\|0, 4IO9\|1\|X, 2OGM\|1\|0, 1P9X\|1\|0, 5DM7\|1\|X, 1JZX\|1\|A, 2ZJR\|1\|X, 1XBP\|1\|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).

#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	5DM7\|1\|X	Title: Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with hygromycin A	X-RAY DIFFRACTION	3	2780
3	5DM6\|1\|X	Title: Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans	X-RAY DIFFRACTION	2.9	2780
4	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
5	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
6	4IO9\|1\|X	Title: Crystal structure of compound 4d bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	3.2	2686
7	4IOA\|1\|X	Title: Crystal structure of compound 4e bound to large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	3.2	2686
8	2ZJR\|1\|X	Title: Refined native structure of the large ribosomal subunit (50S) from Deinococcus radiodurans	X-RAY DIFFRACTION	2.91	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	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
13	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
14	2AAR\|1\|0	Title: Structure of trigger factor binding domain in biologically homologous complex with eubacterial ribosome.	X-RAY DIFFRACTION	3.5	2766
15	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
16	1SM1\|1\|0	Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN	X-RAY DIFFRACTION	3.42	2766
17	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
18	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
19	1NKW\|1\|0	Title: Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans	X-RAY DIFFRACTION	3.1	2766
20	1NWX\|1\|0	Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH ABT-773	X-RAY DIFFRACTION	3.5	2766
21	1NWY\|1\|0	Title: COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH AZITHROMYCIN	X-RAY DIFFRACTION	3.3	2766
22	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
23	1K01\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.5	2774
24	1JZX\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.1	2774
25	1JZY\|1\|A	Title: Structural Basis for the Interaction of Antibiotics with the Peptidyl Transferase Center in Eubacteria	X-RAY DIFFRACTION	3.5	2774
26	1J5A\|1\|A	Title: STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIA	X-RAY DIFFRACTION	3.5	2774
27	1Y69\|1\|0	Title: RRF domain I in complex with the 50S ribosomal subunit from Deinococcus radiodurans	X-RAY DIFFRACTION	3.33	2766

Coloring options: Nucleotide numbers

Equivalence class NR_3.5_08124.2 Obsolete

Release history

Parents

Children