NR_2.5_83717.117

Members (46)
History
Heat map

#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	Date
1	4YBB\|1\|DA (rep)	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	High-resolution structure of the Escherichia coli ribosome	X-ray diffraction	2.1	2015-03-18
2	4YBB\|1\|CA	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	High-resolution structure of the Escherichia coli ribosome	X-ray diffraction	2.1	2015-03-18
3	8B0X\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli B	Bacteria	RF02541	Translating 70S ribosome in the unrotated state (P and E, tRNAs)	Electron microscopy	1.55	2022-11-30
4	8E30\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound streptogramin A analog 3142	Electron microscopy	1.91	2023-06-28
5	8E3O\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to solithromycin and VM1	Electron microscopy	1.99	2023-06-28
6	8E49\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to antibiotic analog SLC31	Electron microscopy	2.05	2023-06-28
7	7QQ3\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli K-12	Bacteria	RF02541	Cryo-EM structure of the E.coli 50S ribosomal subunit in complex with the antibiotic Myxovalargin A.	Electron microscopy	2.1	2023-01-18
8	8AYE\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	E. coli 70S ribosome bound to thermorubin and fMet-tRNA	Electron microscopy	1.96	2023-03-01
9	7ZP8\|1\|b	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	70S E. coli ribosome with a stalled filamin domain 5 nascent chain	Electron microscopy	2.2	2022-08-10
10	8E43\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound streptogramin A analog 3336	Electron microscopy	2.09	2023-06-28
11	7K00\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Structure of the Bacterial Ribosome at 2 Angstrom Resolution	Electron microscopy	1.98	2020-09-23
12	8G6W\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Structure of WT E.coli 70S ribosome complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site ortho-aminobenzoic acid charged NH-tRNAPhe	Electron microscopy	2.02	2023-04-05
13	8E41\|1\|I	Large subunit ribosomal RNA	50S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to tiamulin and VS1	Electron microscopy	2.13	2023-06-28
14	6XZ7\|1\|A	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).	Electron microscopy	2.1	2020-07-22
15	7Z20\|1\|b	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	70S E. coli ribosome with an extended uL23 loop from Candidatus marinimicrobia and a stalled filamin domain 5 nascent chain	Electron microscopy	2.29	2022-08-10
16	7LVK\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Cfr-modified 50S subunit from Escherichia coli	Electron microscopy	2.2	2021-12-15
17	6PJ6\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	High resolution cryo-EM structure of E.coli 50S	Electron microscopy	2.2	2020-01-22
18	8G6Y\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site 3-aminopyridine-4-carboxylic acid charged NH-tRNAPhe	Electron microscopy	2.09	2023-04-05
19	8EMM\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates	Electron microscopy	2.1	2023-05-31
20	8E35\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound SAB002	Electron microscopy	2.27	2023-06-28
21	8ANA\|1\|a	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli BW25113	Bacteria	RF02541	Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the 50S ribosomal subunit	Electron microscopy	2.1	2023-03-08
22	7N1P\|1\|23	Large subunit ribosomal RNA	23S rRNA	Escherichia coli K-12	Bacteria	RF02541	Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation	Electron microscopy	2.33	2021-07-14
23	8E48\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to antibiotic analog SLC30	Electron microscopy	2.27	2023-06-28
24	8E33\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound streptogramin analog SAB001	Electron microscopy	2.23	2023-06-28
25	7PJS\|1\|A	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	Structure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C)	Electron microscopy	2.35	2021-10-20
26	8E3M\|1\|I	Large subunit ribosomal RNA	50S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to L-linker solithromycin conjugate	Electron microscopy	2.25	2023-06-28
27	7S1H\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Wild-type Escherichia coli ribosome with antibiotic linezolid	Electron microscopy	2.35	2021-11-17
28	8E47\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to antibiotic analog SLC26	Electron microscopy	2.32	2023-06-28
29	8E45\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to antibiotic analog SLC17	Electron microscopy	2.3	2023-06-28
30	8E42\|1\|I	Large subunit ribosomal RNA	50S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to tiamulin and azithromycin	Electron microscopy	2.29	2023-06-28
31	8E46\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to antibiotic analog SLC21	Electron microscopy	2.32	2023-06-28
32	8E32\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1	Electron microscopy	2.35	2023-06-28
33	8E3L\|1\|I	Large subunit ribosomal RNA	50S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to D-linker solithromycin conjugate	Electron microscopy	2.35	2023-06-28
34	7S1K\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Cfr-modified Escherichia coli stalled ribosome with antibiotic radezolid	Electron microscopy	2.42	2022-01-19
35	7O1A\|1\|BA	Large subunit ribosomal RNA	Ribosomal RNA 23S	Escherichia coli K-12	Bacteria	RF02541	Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophan	Electron microscopy	2.4	2021-09-01
36	8EIU\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	E. coli 70S ribosome with A-loop mutations U2554C and U2555C	Electron microscopy	2.24	2023-02-01
37	7S1J\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Wild-type Escherichia coli ribosome with antibiotic radezolid	Electron microscopy	2.47	2022-03-02
38	7S1I\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Wild-type Escherichia coli stalled ribosome with antibiotic radezolid	Electron microscopy	2.48	2022-03-02
39	7S1G\|1\|I	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	wild-type Escherichia coli stalled ribosome with antibiotic linezolid	Electron microscopy	2.48	2021-11-17
40	8E36\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound streptogramin A analog 3146	Electron microscopy	2.38	2023-06-28
41	8AKN\|1\|a	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli BW25113	Bacteria	RF02541	Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the terminating ribosome	Electron microscopy	2.3	2023-03-08
42	7BL4\|1\|A	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli K-12	Bacteria	RF02541	in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particle	Electron microscopy	2.4	2021-05-12
43	8G6X\|1\|a	Large subunit ribosomal RNA	23S rRNA	Escherichia coli	Bacteria	RF02541	Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site meta-aminobenzoic acid charged NH-tRNAPhe	Electron microscopy	2.31	2023-03-22
44	6PCR\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound 40o	Electron microscopy	2.5	2020-06-17
45	6PC6\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound 47	Electron microscopy	2.5	2020-06-17
46	6PC7\|1\|I	Large subunit ribosomal RNA	23S ribosomal RNA	Escherichia coli	Bacteria	RF02541	E. coli 50S ribosome bound to compound 46	Electron microscopy	2.5	2020-06-17

Release history

Release	3.289	3.290	3.291
Date	2023-06-28	2023-07-05	2023-07-12

Parents

This class	Parent classes	Release id	Intersection	Added to this class	Only in parent
NR_2.5_83717.117	NR_2.5_83717.116	3.289	(30) 6PC6\|1\|I, 7S1K\|1\|I, 7K00\|1\|a, 8B0X\|1\|a, 7S1G\|1\|I, 6PCR\|1\|I, 7ZP8\|1\|b, 8EMM\|1\|a, 7N1P\|1\|23, 4YBB\|1\|CA, 7S1I\|1\|I, 6XZ7\|1\|A, 8ANA\|1\|a, 8G6X\|1\|a, 7PJS\|1\|A, 7BL4\|1\|A, 6PC7\|1\|I, 7LVK\|1\|I, 6PJ6\|1\|I, 4YBB\|1\|DA, 7QQ3\|1\|I, 7Z20\|1\|b, 7S1H\|1\|I, 7O1A\|1\|BA, 7S1J\|1\|I, 8AYE\|1\|a, 8G6Y\|1\|a, 8EIU\|1\|a, 8AKN\|1\|a, 8G6W\|1\|a	(16) 8E41\|1\|I, 8E43\|1\|I, 8E46\|1\|I, 8E42\|1\|I, 8E3O\|1\|I, 8E45\|1\|I, 8E3M\|1\|I, 8E3L\|1\|I, 8E36\|1\|I, 8E35\|1\|I, 8E33\|1\|I, 8E32\|1\|I, 8E30\|1\|I, 8E49\|1\|I, 8E48\|1\|I, 8E47\|1\|I	(0)

Children

This class	Descendant classes	Release id	Intersection	Only in this class	Added to child
NR_2.5_83717.117	NR_2.5_83717.118	3.292	(46) 8E41\|1\|I, 8EIU\|1\|a, 4YBB\|1\|DA, 7LVK\|1\|I, 7S1J\|1\|I, 8E30\|1\|I, 8E49\|1\|I, 4YBB\|1\|CA, 7K00\|1\|a, 7S1I\|1\|I, 8B0X\|1\|a, 8E3O\|1\|I, 8E48\|1\|I, 7BL4\|1\|A, 7S1H\|1\|I, 8AYE\|1\|a, 8E3M\|1\|I, 8E47\|1\|I, 6XZ7\|1\|A, 7S1G\|1\|I, 8ANA\|1\|a, 8E3L\|1\|I, 8E46\|1\|I, 8G6Y\|1\|a, 6PJ6\|1\|I, 7QQ3\|1\|I, 8AKN\|1\|a, 8E36\|1\|I, 8E45\|1\|I, 8G6X\|1\|a, 6PCR\|1\|I, 7PJS\|1\|A, 7ZP8\|1\|b, 8E35\|1\|I, 8E43\|1\|I, 8G6W\|1\|a, 6PC7\|1\|I, 7O1A\|1\|BA, 7Z20\|1\|b, 8E33\|1\|I, 8E42\|1\|I, 8EMM\|1\|a, 6PC6\|1\|I, 7N1P\|1\|23, 7S1K\|1\|I, 8E32\|1\|I	(0)	(2) 8CEP\|1\|a, 8CGK\|1\|a

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	4YBB\|1\|DA	High-resolution structure of the Escherichia coli ribosome	X-RAY DIFFRACTION	2.1	2883
2	6XZ7\|1\|A	E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).	ELECTRON MICROSCOPY	2.1	2876
3	8AKN\|1\|a	Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the terminating ribosome	ELECTRON MICROSCOPY	2.3	2731
4	8ANA\|1\|a	Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the 50S ribosomal subunit	ELECTRON MICROSCOPY	2.1	2714
5	7PJS\|1\|A	Structure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C)	ELECTRON MICROSCOPY	2.35	2880
6	8AYE\|1\|a	E. coli 70S ribosome bound to thermorubin and fMet-tRNA	ELECTRON MICROSCOPY	1.96	2731
7	8G6Y\|1\|a	Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site 3-aminopyridine-4-carboxylic acid charged NH-tRNAPhe	ELECTRON MICROSCOPY	2.09	2729
8	8G6W\|1\|a	Structure of WT E.coli 70S ribosome complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site ortho-aminobenzoic acid charged NH-tRNAPhe	ELECTRON MICROSCOPY	2.02	2732
9	8G6X\|1\|a	Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site meta-aminobenzoic acid charged NH-tRNAPhe	ELECTRON MICROSCOPY	2.31	2729
10	8EMM\|1\|a	Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates	ELECTRON MICROSCOPY	2.1	2729
11	7K00\|1\|a	Structure of the Bacterial Ribosome at 2 Angstrom Resolution	ELECTRON MICROSCOPY	1.98	2729
12	8EIU\|1\|a	E. coli 70S ribosome with A-loop mutations U2554C and U2555C	ELECTRON MICROSCOPY	2.24	2729
13	7N1P\|1\|23	Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation	ELECTRON MICROSCOPY	2.33	2882
14	7S1J\|1\|I	Wild-type Escherichia coli ribosome with antibiotic radezolid	ELECTRON MICROSCOPY	2.47	2876
15	7S1I\|1\|I	Wild-type Escherichia coli stalled ribosome with antibiotic radezolid	ELECTRON MICROSCOPY	2.48	2874
16	7S1G\|1\|I	wild-type Escherichia coli stalled ribosome with antibiotic linezolid	ELECTRON MICROSCOPY	2.48	2874
17	7S1H\|1\|I	Wild-type Escherichia coli ribosome with antibiotic linezolid	ELECTRON MICROSCOPY	2.35	2876
18	7S1K\|1\|I	Cfr-modified Escherichia coli stalled ribosome with antibiotic radezolid	ELECTRON MICROSCOPY	2.42	2875
19	8B0X\|1\|a	Translating 70S ribosome in the unrotated state (P and E, tRNAs)	ELECTRON MICROSCOPY	1.55	2724
20	7O1A\|1\|BA	Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophan	ELECTRON MICROSCOPY	2.4	2874
21	7ZP8\|1\|b	70S E. coli ribosome with a stalled filamin domain 5 nascent chain	ELECTRON MICROSCOPY	2.2	2901
22	7Z20\|1\|b	70S E. coli ribosome with an extended uL23 loop from Candidatus marinimicrobia and a stalled filamin domain 5 nascent chain	ELECTRON MICROSCOPY	2.29	2901
23	7BL4\|1\|A	in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particle	ELECTRON MICROSCOPY	2.4	2897
24	7QQ3\|1\|I	Cryo-EM structure of the E.coli 50S ribosomal subunit in complex with the antibiotic Myxovalargin A.	ELECTRON MICROSCOPY	2.1	2880
25	4YBB\|1\|CA	High-resolution structure of the Escherichia coli ribosome	X-RAY DIFFRACTION	2.1	2876
26	6PJ6\|1\|I	High resolution cryo-EM structure of E.coli 50S	ELECTRON MICROSCOPY	2.2	2874
27	7LVK\|1\|I	Cfr-modified 50S subunit from Escherichia coli	ELECTRON MICROSCOPY	2.2	2876
28	8E3O\|1\|I	E. coli 50S ribosome bound to solithromycin and VM1	ELECTRON MICROSCOPY	1.99	2876
29	6PC7\|1\|I	E. coli 50S ribosome bound to compound 46	ELECTRON MICROSCOPY	2.5	2876
30	6PCR\|1\|I	E. coli 50S ribosome bound to compound 40o	ELECTRON MICROSCOPY	2.5	2876
31	6PC6\|1\|I	E. coli 50S ribosome bound to compound 47	ELECTRON MICROSCOPY	2.5	2876
32	8E36\|1\|I	E. coli 50S ribosome bound to compound streptogramin A analog 3146	ELECTRON MICROSCOPY	2.38	2876
33	8E33\|1\|I	E. coli 50S ribosome bound to compound streptogramin analog SAB001	ELECTRON MICROSCOPY	2.23	2878
34	8E43\|1\|I	E. coli 50S ribosome bound to compound streptogramin A analog 3336	ELECTRON MICROSCOPY	2.09	2882
35	8E41\|1\|I	E. coli 50S ribosome bound to tiamulin and VS1	ELECTRON MICROSCOPY	2.13	2877
36	8E3M\|1\|I	E. coli 50S ribosome bound to L-linker solithromycin conjugate	ELECTRON MICROSCOPY	2.25	2877
37	8E30\|1\|I	E. coli 50S ribosome bound to compound streptogramin A analog 3142	ELECTRON MICROSCOPY	1.91	2877
38	8E42\|1\|I	E. coli 50S ribosome bound to tiamulin and azithromycin	ELECTRON MICROSCOPY	2.29	2877
39	8E49\|1\|I	E. coli 50S ribosome bound to antibiotic analog SLC31	ELECTRON MICROSCOPY	2.05	2883
40	8E45\|1\|I	E. coli 50S ribosome bound to antibiotic analog SLC17	ELECTRON MICROSCOPY	2.3	2878
41	8E46\|1\|I	E. coli 50S ribosome bound to antibiotic analog SLC21	ELECTRON MICROSCOPY	2.32	2876
42	8E32\|1\|I	E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1	ELECTRON MICROSCOPY	2.35	2880
43	8E3L\|1\|I	E. coli 50S ribosome bound to D-linker solithromycin conjugate	ELECTRON MICROSCOPY	2.35	2876
44	8E48\|1\|I	E. coli 50S ribosome bound to antibiotic analog SLC30	ELECTRON MICROSCOPY	2.27	2886
45	8E47\|1\|I	E. coli 50S ribosome bound to antibiotic analog SLC26	ELECTRON MICROSCOPY	2.32	2883
46	8E35\|1\|I	E. coli 50S ribosome bound to compound SAB002	ELECTRON MICROSCOPY	2.27	2880

Equivalence class NR_2.5_83717.117 Obsolete

Release history

Parents

Children