NR_3.5_69813.19

Members (45)
History
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#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	#NTs	Date
1	9TQA\|1\|Y (rep)	Transfer RNA	A-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A- and P-site tRNA	Electron microscopy	2.06	72	2026-05-20
2	28UI\|1\|Y	Transfer RNA	A-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A- and P-site tRNA	Electron microscopy	2.1	72	2026-05-20
3	9TMI\|1\|Y	Transfer RNA	A-site Val-tRNA, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome with A- and P-site tRNA	Electron microscopy	2.08	72	2026-05-20
4	28UM\|1\|Y	Transfer RNA	A-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, conformational excited state mutation in SSU-h41, with A- and P-site tRNA	Electron microscopy	2.15	72	2026-05-20
5	28UK\|1\|Y	Transfer RNA	A-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, conformational ground state mutation in SSU-h41, with A- and P-site tRNA	Electron microscopy	2.24	72	2026-05-20
6	7EQJ\|1\|B	Transfer RNA	RNA (76-MER)	Escherichia coli	Bacteria	RF00005	crystal structure of E. coli Valine tRNA	X-ray diffraction	2.043	75	2022-01-19
7	7EQJ\|1\|A	Transfer RNA	RNA (76-MER)	Escherichia coli	Bacteria	RF00005	crystal structure of E. coli Valine tRNA	X-ray diffraction	2.043	76	2022-01-19
8	9B51\|1\|AW	Transfer RNA	tRNA-Val	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome complex (N1-methylated 16S A1408 + G418)	Electron microscopy	2.4	74	2025-08-27
9	28UH\|1\|Y	Transfer RNA	A/P-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A/P- and P/E-site tRNA	Electron microscopy	2.06	72	2026-05-20
10	28UJ\|1\|Y	Transfer RNA	A/P-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A/P- and P/E-site tRNA	Electron microscopy	2.16	72	2026-05-20
11	9B4Z\|1\|AW	Transfer RNA	tRNA-Val	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome complex (N1-methylated 16S A1408 + arbekacin)	Electron microscopy	2.2	74	2025-08-27
12	9TNL\|1\|Y	Transfer RNA	A/P-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome with A/P- and P/E-site tRNA	Electron microscopy	2.11	72	2026-05-20
13	6OF1\|1\|1w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-ray diffraction	2.8	73	2019-04-17
14	6CAE\|1\|1y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-ray diffraction	2.6	74	2018-04-18
15	5IBB\|1\|1K	Transfer RNA	mRNA, tRNAVal	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site	X-ray diffraction	2.96	72	2016-05-25
16	8URM\|1\|6	Transfer RNA	tRNA Val	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome with unmodified tRNAPro(GGG) bound to slippery P-site CCC-C codon and tRNAVal(UAC) in the A site	Electron microscopy	3	76	2025-07-09
17	9NL5\|1\|T	Transfer RNA	tRNA	Escherichia coli	Bacteria	RF00005	E. coli pre-elongation complex without an A-site tRNA with EQ2-EttA in Hydrolytic 1 conformation	Electron microscopy	3	76	2025-04-02
18	6O97\|1\|1w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-ray diffraction	2.75	73	2019-04-17
19	6OF1\|1\|2w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-ray diffraction	2.8	73	2019-04-17
20	6OF1\|1\|1y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-ray diffraction	2.8	73	2019-04-17
21	6CAE\|1\|1w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-ray diffraction	2.6	73	2018-04-18
22	9B4Z\|1\|AY	Transfer RNA	tRNA-Val	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome complex (N1-methylated 16S A1408 + arbekacin)	Electron microscopy	2.2	74	2025-08-27
23	6O97\|1\|1y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-ray diffraction	2.75	73	2019-04-17
24	6CAE\|1\|2w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-ray diffraction	2.6	73	2018-04-18
25	6CAE\|1\|2y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-ray diffraction	2.6	73	2018-04-18
26	6ND6\|1\|1y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-ray diffraction	2.85	74	2019-02-20
27	6OF1\|1\|2y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-ray diffraction	2.8	73	2019-04-17
28	5IBB\|1\|3L	Transfer RNA	tRNAVal	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site	X-ray diffraction	2.96	71	2016-05-25
29	6ND6\|1\|1w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-ray diffraction	2.85	73	2019-02-20
30	6O97\|1\|2y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-ray diffraction	2.75	73	2019-04-17
31	6O97\|1\|2w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-ray diffraction	2.75	73	2019-04-17
32	6ND6\|1\|2y	Transfer RNA	A-site and E-site tRNAs	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-ray diffraction	2.85	73	2019-02-20
33	7K00\|1\|Y	Transfer RNA	A-site tRNA-val, mRNA	Escherichia coli	Bacteria	RF00005	Structure of the Bacterial Ribosome at 2 Angstrom Resolution	Electron microscopy	1.98	74	2020-09-23
34	9B51\|1\|AY	Transfer RNA	tRNA-Val	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome complex (N1-methylated 16S A1408 + G418)	Electron microscopy	2.4	74	2025-08-27
35	5IBB\|1\|3K	Transfer RNA	tRNAVal	Escherichia coli	Bacteria	RF00005	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site	X-ray diffraction	2.96	70	2016-05-25
36	6ND6\|1\|2w	Transfer RNA	A-site and E-site tRNAs, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-ray diffraction	2.85	73	2019-02-20
37	6N1D\|1\|BPTN	Transfer RNA	P-tRNA	Escherichia coli	Bacteria	RF00005	X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State	X-ray diffraction	3.2	76	2019-04-03
38	9NJF\|1\|T	Transfer RNA	tRNA	Escherichia coli	Bacteria	RF00005	E. coli pre-elongation complex without an A-site tRNA with EQ2-YbiT in Non-hydrolytic 1/PtIM(a) conformation	Electron microscopy	3.4	76	2025-04-02
39	28UL\|1\|Y	Transfer RNA	A/P-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, conformational ground state mutation in SSU-h41, with A/P- and P/E-site tRNA	Electron microscopy	2.5	72	2026-05-20
40	6N1D\|1\|APTN	Transfer RNA	mRNA, P-tRNA	Escherichia coli	Bacteria	RF00005	X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State	X-ray diffraction	3.2	76	2019-04-03
41	28UN\|1\|Y	Transfer RNA	A/P-site Val-tRNA^Val, mRNA	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome, conformational excited state mutation in SSU-h41, with A/P- and P/E-site tRNA	Electron microscopy	2.48	72	2026-05-20
42	7B5K\|1\|9	Transfer RNA	E-site val tRNA (76-MER)	Escherichia coli K-12	Bacteria	RF00005	E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain.	Electron microscopy	2.9	76	2021-05-26
43	8PEG\|1\|Y	Transfer RNA	mRNA, tRNA-Val (A-site)	Escherichia coli	Bacteria	RF00005	Escherichia coli paused disome complex (queueing 70S non-rotated closed PRE state)	Electron microscopy	3.3	76	2024-03-06
44	8R3V\|1\|Y1	Transfer RNA	messenger RNA, tRNA-Val (A-site)	Escherichia coli	Bacteria	RF00005	Escherichia coli paused disome complex (non-rotated disome interface)	Electron microscopy	3.28	36	2024-03-06
45	8RCL\|1\|Y1	Transfer RNA	messenger RNA, tRNA-Val (A-site)	Escherichia coli	Bacteria	RF00005	Escherichia coli paused disome complex (Non-rotated disome interface class 1)	Electron microscopy	3.49	36	2024-03-13

Release history

Release	4.40
Date	2026-05-20

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

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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.

#S	PDB	Title	Method	Resolution	#NTs
1	5IBB\|1\|1K	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site	X-RAY DIFFRACTION	2.96	72
2	9NL5\|1\|T	E. coli pre-elongation complex without an A-site tRNA with EQ2-EttA in Hydrolytic 1 conformation	ELECTRON MICROSCOPY	3	76
3	9NJF\|1\|T	E. coli pre-elongation complex without an A-site tRNA with EQ2-YbiT in Non-hydrolytic 1/PtIM(a) conformation	ELECTRON MICROSCOPY	3.4	76
4	6OF1\|1\|1w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-RAY DIFFRACTION	2.8	73
5	6O97\|1\|1w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-RAY DIFFRACTION	2.75	73
6	6ND6\|1\|1w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-RAY DIFFRACTION	2.85	73
7	6CAE\|1\|1w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-RAY DIFFRACTION	2.6	73
8	6CAE\|1\|2w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-RAY DIFFRACTION	2.6	73
9	6OF1\|1\|2w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-RAY DIFFRACTION	2.8	73
10	6O97\|1\|2w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-RAY DIFFRACTION	2.75	73
11	6ND6\|1\|2w	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-RAY DIFFRACTION	2.85	73
12	7K00\|1\|Y	Structure of the Bacterial Ribosome at 2 Angstrom Resolution	ELECTRON MICROSCOPY	1.98	74
13	9B51\|1\|AW	E. coli 70S ribosome complex (N1-methylated 16S A1408 + G418)	ELECTRON MICROSCOPY	2.4	74
14	9TMI\|1\|Y	E. coli 70S ribosome with A- and P-site tRNA	ELECTRON MICROSCOPY	2.08	72
15	28UI\|1\|Y	E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A- and P-site tRNA	ELECTRON MICROSCOPY	2.1	72
16	9TQA\|1\|Y	E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A- and P-site tRNA	ELECTRON MICROSCOPY	2.06	72
17	28UM\|1\|Y	E. coli 70S ribosome, conformational excited state mutation in SSU-h41, with A- and P-site tRNA	ELECTRON MICROSCOPY	2.15	72
18	28UK\|1\|Y	E. coli 70S ribosome, conformational ground state mutation in SSU-h41, with A- and P-site tRNA	ELECTRON MICROSCOPY	2.24	72
19	8URM\|1\|6	E. coli 70S ribosome with unmodified tRNAPro(GGG) bound to slippery P-site CCC-C codon and tRNAVal(UAC) in the A site	ELECTRON MICROSCOPY	3	76
20	8R3V\|1\|Y1	Escherichia coli paused disome complex (non-rotated disome interface)	ELECTRON MICROSCOPY	3.28	36
21	8PEG\|1\|Y	Escherichia coli paused disome complex (queueing 70S non-rotated closed PRE state)	ELECTRON MICROSCOPY	3.3	76
22	8RCL\|1\|Y1	Escherichia coli paused disome complex (Non-rotated disome interface class 1)	ELECTRON MICROSCOPY	3.49	36
23	28UL\|1\|Y	E. coli 70S ribosome, conformational ground state mutation in SSU-h41, with A/P- and P/E-site tRNA	ELECTRON MICROSCOPY	2.5	72
24	28UJ\|1\|Y	E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A/P- and P/E-site tRNA	ELECTRON MICROSCOPY	2.16	72
25	28UH\|1\|Y	E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A/P- and P/E-site tRNA	ELECTRON MICROSCOPY	2.06	72
26	9TNL\|1\|Y	E. coli 70S ribosome with A/P- and P/E-site tRNA	ELECTRON MICROSCOPY	2.11	72
27	28UN\|1\|Y	E. coli 70S ribosome, conformational excited state mutation in SSU-h41, with A/P- and P/E-site tRNA	ELECTRON MICROSCOPY	2.48	72
28	9B4Z\|1\|AW	E. coli 70S ribosome complex (N1-methylated 16S A1408 + arbekacin)	ELECTRON MICROSCOPY	2.2	74
29	7EQJ\|1\|A	crystal structure of E. coli Valine tRNA	X-RAY DIFFRACTION	2.043	76
30	7EQJ\|1\|B	crystal structure of E. coli Valine tRNA	X-RAY DIFFRACTION	2.043	75
31	6ND6\|1\|1y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-RAY DIFFRACTION	2.85	74
32	6OF1\|1\|1y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-RAY DIFFRACTION	2.8	73
33	6CAE\|1\|1y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-RAY DIFFRACTION	2.6	74
34	6O97\|1\|1y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-RAY DIFFRACTION	2.75	73
35	6O97\|1\|2y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution	X-RAY DIFFRACTION	2.75	73
36	6OF1\|1\|2y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution	X-RAY DIFFRACTION	2.8	73
37	6CAE\|1\|2y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution	X-RAY DIFFRACTION	2.6	73
38	6ND6\|1\|2y	Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution	X-RAY DIFFRACTION	2.85	73
39	9B51\|1\|AY	E. coli 70S ribosome complex (N1-methylated 16S A1408 + G418)	ELECTRON MICROSCOPY	2.4	74
40	9B4Z\|1\|AY	E. coli 70S ribosome complex (N1-methylated 16S A1408 + arbekacin)	ELECTRON MICROSCOPY	2.2	74
41	5IBB\|1\|3K	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site	X-RAY DIFFRACTION	2.96	70
42	5IBB\|1\|3L	Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site	X-RAY DIFFRACTION	2.96	71
43	6N1D\|1\|BPTN	X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State	X-RAY DIFFRACTION	3.2	76
44	6N1D\|1\|APTN	X-ray Crystal complex showing Spontaneous Ribosomal Translocation of mRNA and tRNAs into a Chimeric Hybrid State	X-RAY DIFFRACTION	3.2	76
45	7B5K\|1\|9	E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain.	ELECTRON MICROSCOPY	2.9	76

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.

Coloring options: Nucleotide numbers

Equivalence class NR_3.5_69813.19 Current

Release history

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