NR_2.5_35542.149

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#	IFE	Standardized name	Molecule	Organism	Source	Rfam	Title	Method	Res. Å	#NTs	Date
1	9DFC\|1\|1x (rep)	Transfer RNA	P-site Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-ray diffraction	2.5	77	2024-11-20
2	9DFC\|1\|2x	Transfer RNA	P-site Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-ray diffraction	2.5	77	2024-11-20
3	9D0J\|1\|1x	Transfer RNA	P-site Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with BT-33, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-ray diffraction	2.5	76	2024-11-20
4	8G2A\|1\|1x	Transfer RNA	P-site Peptidyl-tRNA fMTHSMRC-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution	X-ray diffraction	2.45	77	2023-12-27
5	8VTU\|1\|1x	Transfer RNA	Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-66, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-ray diffraction	2.4	77	2024-08-07
6	8G2A\|1\|2x	Transfer RNA	P-site Peptidyl-tRNA fMTHSMRC-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution	X-ray diffraction	2.45	77	2023-12-27
7	8VTU\|1\|2x	Transfer RNA	Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-66, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-ray diffraction	2.4	77	2024-08-07
8	8VTX\|1\|1x	Transfer RNA	Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-ray diffraction	2.4	77	2024-08-07
9	8VTX\|1\|2x	Transfer RNA	Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-ray diffraction	2.4	77	2024-08-07
10	9D0J\|1\|2x	Transfer RNA	P-site Aminoacylated fMet-tRNAmet	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with BT-33, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-ray diffraction	2.5	76	2024-11-20
11	7RQ8\|1\|1x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution	X-ray diffraction	2.5	76	2021-10-13
12	6XHW\|1\|1x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.50A resolution	X-ray diffraction	2.5	76	2020-12-23
13	7RQ8\|1\|2x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution	X-ray diffraction	2.5	76	2021-10-13
14	8CVK\|1\|1x	Transfer RNA	MF-mRNA, P-site Peptidyl-tRNA fMRC-NH-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-ray diffraction	2.5	77	2022-10-19
15	6XHV\|1\|1x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution	X-ray diffraction	2.4	76	2020-12-23
16	8CVK\|1\|2x	Transfer RNA	MF-mRNA, P-site Peptidyl-tRNA fMRC-NH-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-ray diffraction	2.5	77	2022-10-19
17	6XHW\|1\|2x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.50A resolution	X-ray diffraction	2.5	76	2020-12-23
18	6XHV\|1\|2x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution	X-ray diffraction	2.4	76	2020-12-23
19	4Y4P\|1\|1x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution	X-ray diffraction	2.5	76	2015-03-18
20	8CVJ\|1\|1x	Transfer RNA	MF-mRNA, P-site Peptidyl-tRNA fMSEAC-NH-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMSEAC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-ray diffraction	2.4	77	2022-10-19
21	8CVJ\|1\|2x	Transfer RNA	MF-mRNA, P-site Peptidyl-tRNA fMSEAC-NH-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMSEAC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-ray diffraction	2.4	77	2022-10-19
22	8CVL\|1\|1x	Transfer RNA	MF-mRNA, P-site Peptidyl-tRNA fMTHSMRC-NH-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution	X-ray diffraction	2.3	77	2022-10-19
23	4W2F\|1\|AX	Transfer RNA	E-site tRNA, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites	X-ray diffraction	2.4	76	2014-10-15
24	8CVL\|1\|2x	Transfer RNA	MF-mRNA, P-site Peptidyl-tRNA fMTHSMRC-NH-tRNAmet RNA-part	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution	X-ray diffraction	2.3	77	2022-10-19
25	4W2F\|1\|CX	Transfer RNA	E-site tRNA, mRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites	X-ray diffraction	2.4	76	2014-10-15
26	4Y4P\|1\|2x	Transfer RNA	mRNA, P-site tRNA	Escherichia coli	Bacteria	RF00005	Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution	X-ray diffraction	2.5	76	2015-03-18
27	9Q87\|1\|Z	Transfer RNA	mRNA, P-site tRNA	Escherichia coli B	Bacteria	RF00005	Principles of ion binding to RNA inferred from the analysis of a 1.55 Angstrom resolution bacterial ribosome structure - Part I: Mg2+	Electron microscopy	1.55	77	2025-05-14
28	8B0X\|1\|Z	Transfer RNA	mRNA, P-site tRNA	Escherichia coli B	Bacteria	RF00005	Translating 70S ribosome in the unrotated state (P and E, tRNAs)	Electron microscopy	1.55	75	2022-11-30
29	8FTO\|1\|Z	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome with an improved MS2 tag inserted in H98	Electron microscopy	1.85	76	2023-08-02
30	9GHE\|1\|Z	Transfer RNA	mRNA, tRNA	Escherichia coli K-12	Bacteria	RF00005	Staphylococcus aureus FusB bound to the small subunit of the Escherichia coli 70S ribosome (FusB-70S:SSU)	Electron microscopy	1.87	76	2025-03-26
31	8CCS\|1\|Cc	Transfer RNA	Messenger RNA, Transfer RNA fMet	Escherichia coli	Bacteria	RF00005	80S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complex	Electron microscopy	1.97	77	2023-09-20
32	8AYE\|1\|Z	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome bound to thermorubin and fMet-tRNA	Electron microscopy	1.96	76	2023-03-01
33	7K00\|1\|Z	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	Structure of the Bacterial Ribosome at 2 Angstrom Resolution	Electron microscopy	1.98	76	2020-09-23
34	8P2G\|1\|D	Transfer RNA	mRNA, tRNA	Escherichia coli	Bacteria	RF00005	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane with a tRNA in pe/E chimeric state	Electron microscopy	2.02	77	2024-05-01
35	8CDR\|1\|Cc	Transfer RNA	Messenger RNA, Transfer RNA fMet	Escherichia coli	Bacteria	RF00005	Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin	Electron microscopy	2.04	77	2023-09-20
36	8CEH\|1\|Cc	Transfer RNA	Messenger RNA, Transfer RNA fMet	Escherichia coli	Bacteria	RF00005	Translocation intermediate 4 (TI-4) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin	Electron microscopy	2.05	77	2023-09-20
37	8G6W\|1\|Z	Transfer RNA	mRNA, P-site fMet-tRNAfMet	Escherichia coli	Bacteria	RF00005	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	75	2023-04-05
38	8BIL\|1\|4	Transfer RNA	Acylated P-site tRNA(fMet), mRNA	Escherichia coli K-12	Bacteria	RF00005	Initiation complex of the E. coli 70S ribosome with mRNA containing AAA codon in the A-site.	Electron microscopy	2.04	77	2023-08-16
39	8EMM\|1\|Y	Transfer RNA	Met-NH-tRNA, mRNA	Escherichia coli	Bacteria	RF00005	Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates	Electron microscopy	2.1	76	2023-05-31
40	8EMM\|1\|Z	Transfer RNA	Met-NH-tRNA, mRNA	Escherichia coli	Bacteria	RF00005	Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates	Electron microscopy	2.1	76	2023-05-31
41	6XZ7\|1\|f	Transfer RNA	Deacylated tRNAi(Met)	Escherichia coli	Bacteria	RF00005	E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).	Electron microscopy	2.1	76	2020-07-22
42	9G6J\|1\|PT	Transfer RNA	mRNA, tRNA-fMet	Escherichia coli	Bacteria	RF00005	The structure of the Candida albicans ribosome with tRNA-fMet, mRNA, and compounds (GEN and MFQ) with strong density for the P-site tRNA	Electron microscopy	2.15	76	2025-04-23
43	9G6J\|1\|AT	Transfer RNA	tRNA-fMet	Escherichia coli	Bacteria	RF00005	The structure of the Candida albicans ribosome with tRNA-fMet, mRNA, and compounds (GEN and MFQ) with strong density for the P-site tRNA	Electron microscopy	2.15	76	2025-04-23
44	8G6Y\|1\|Z	Transfer RNA	mRNA, P-site tRNA fMet	Escherichia coli	Bacteria	RF00005	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	75	2023-04-05
45	9N2B\|1\|Pt	Transfer RNA	N-formyl-methionine initiator tRNA (fMet-tRNAfMet), Synthetic messenger RNA (mRNA) 60 bp in length	Escherichia coli K-12	Bacteria	RF00005	Impacts of ribosomal RNA sequence variation on gene expression and phenotype: Cryo-EM structure of the rrsB ribosome (BBB-70S)	Electron microscopy	2.2	77	2025-03-19
46	9GHG\|1\|D	Transfer RNA	E-site tRNA	Escherichia coli K-12	Bacteria	RF00005	Staphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)	Electron microscopy	2.22	77	2025-03-26
47	8BIM\|1\|4	Transfer RNA	Acylated P-site tRNA(fMet), mRNA	Escherichia coli K-12	Bacteria	RF00005	Initiation complex of the E. coli 70S ribosome with mRNA containing AAm6A codon in the A-site	Electron microscopy	2.04	77	2023-08-16
48	9GHB\|1\|Z	Transfer RNA	mRNA, tRNA	Escherichia coli K-12	Bacteria	RF00005	Fusidic acid-locked Escherichia coli 70S ribosome with Staphylococcus aureus EF-G in post-translocational state (POST)	Electron microscopy	2.21	76	2025-03-26
49	9GHG\|1\|F	Transfer RNA	E-site tRNA, mRNA	Escherichia coli K-12	Bacteria	RF00005	Staphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)	Electron microscopy	2.22	76	2025-03-26
50	9GHA\|1\|8	Transfer RNA	mRNA, tRNA	Escherichia coli K-12	Bacteria	RF00005	Fusidic acid-locked Escherichia coli 70S ribosome with Staphylococcus aureus EF-G and a tRNA in pe/E chimeric state (CHI)	Electron microscopy	2.24	77	2025-03-26
51	8BGE\|1\|4	Transfer RNA	Acylated P-site tRNA(fMet), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAm6A mRNA codon in the A-site after uncompleted di-peptide formation	Electron microscopy	2.11	77	2023-08-16
52	8CGN\|1\|Bb	Transfer RNA	Messenger RNA, Transfer RNA fMet	Escherichia coli	Bacteria	RF00005	Non-rotated 80S S. cerevisiae ribosome with ligands	Electron microscopy	2.28	77	2023-09-20
53	8CGN\|1\|Cc	Transfer RNA	Transfer RNA fMet	Escherichia coli	Bacteria	RF00005	Non-rotated 80S S. cerevisiae ribosome with ligands	Electron microscopy	2.28	77	2023-09-20
54	8EIU\|1\|Y	Transfer RNA	mRNA, tRNA-fMET	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome with A-loop mutations U2554C and U2555C	Electron microscopy	2.24	74	2023-02-01
55	8EIU\|1\|Z	Transfer RNA	mRNA, tRNA-fMET	Escherichia coli	Bacteria	RF00005	E. coli 70S ribosome with A-loop mutations U2554C and U2555C	Electron microscopy	2.24	74	2023-02-01
56	8BF7\|1\|4	Transfer RNA	Deacylated P-site tRNA(fMet), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	Electron microscopy	2.33	77	2023-08-16
57	7Y7G\|1\|Z	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU)	Electron microscopy	2.34	77	2023-10-25
58	8BHL\|1\|4	Transfer RNA	Acylated P-site tRNA(fMet), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and Am6AA mRNA codon in the A-site after uncompleted di-peptide formation	Electron microscopy	2.21	77	2023-08-16
59	7TOP\|1\|APTN	Transfer RNA	tRNAfMet	Escherichia coli	Bacteria	RF00005	Yeast 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein PR20	Electron microscopy	2.4	77	2022-05-25
60	9N2C\|1\|Pt	Transfer RNA	N-formyl-methionine initiator tRNA (fMet-tRNAfMet), Synthetic messenger RNA (mRNA) 60 bp in length	Escherichia coli K-12	Bacteria	RF00005	Impacts of ribosomal RNA sequence variation on gene expression and phenotype: Cryo-EM structure of the rrsH ribosome (HBB-70S)	Electron microscopy	2.4	77	2025-03-19
61	7Y7E\|1\|Z	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)	Electron microscopy	2.41	77	2023-10-25
62	9GHF\|1\|Z	Transfer RNA	mRNA, tRNA	Escherichia coli K-12	Bacteria	RF00005	Staphylococcus aureus FusB bound to the large subunit of the Escherichia coli 70S ribosome (FusB-70S:LSU)	Electron microscopy	2.4	76	2025-03-26
63	9GHD\|1\|Z	Transfer RNA	mRNA, tRNA	Escherichia coli K-12	Bacteria	RF00005	Escherichia coli 70S ribosome in complex with Staphylococcus aureus FusB-EF-G (FusB-EF-G-70S*)	Electron microscopy	2.41	76	2025-03-26
64	8IFB\|1\|6	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	Dibekacin-bound E.coli 70S ribosome in the PURE system	Electron microscopy	2.43	77	2024-02-14
65	7Y7F\|1\|Z	Transfer RNA	mRNA, P-site tRNA-fMet	Escherichia coli	Bacteria	RF00005	Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAC)	Electron microscopy	2.43	77	2023-10-25
66	8P2F\|1\|D	Transfer RNA	mRNA, tRNA	Escherichia coli	Bacteria	RF00005	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane in post-translocational state	Electron microscopy	2.44	77	2024-05-01
67	8G6X\|1\|Z	Transfer RNA	mRNA, P-site tRNA fMet	Escherichia coli	Bacteria	RF00005	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	75	2023-03-22
68	8P2F\|1\|F	Transfer RNA	mRNA, tRNA	Escherichia coli	Bacteria	RF00005	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane in post-translocational state	Electron microscopy	2.44	76	2024-05-01
69	9FBV\|1\|Z	Transfer RNA	fMet-tRNA	Escherichia coli BW25113	Bacteria	RF00005	70S Escherichia coli ribosome with P-site initiatior tRNA.	Electron microscopy	2.4	73	2024-06-26
70	8CIV\|1\|Cc	Transfer RNA	Messenger RNA, Transfer RNA fMet	Escherichia coli	Bacteria	RF00005	Translocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin	Electron microscopy	2.47	77	2023-09-20
71	8P2H\|1\|D	Transfer RNA	mRNA, tRNA	Escherichia coli	Bacteria	RF00005	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid with a tRNA in pe/E chimeric state	Electron microscopy	2.49	77	2024-05-01
72	8BHP\|1\|4	Transfer RNA	Deacylated P-site tRNA(fMet), mRNA	Escherichia coli K-12	Bacteria	RF00005	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and m6AAA mRNA codon in the A-site after uncompleted di-peptide formation	Electron microscopy	2.37	77	2023-08-16
73	9GUU\|1\|W	Transfer RNA	tRNA(fmet) P-site	Escherichia coli K-12	Bacteria	RF00005	30S mRNA delivery complex (consensus)	Electron microscopy	2.5	77	2024-11-20
74	8R6C\|1\|5	Transfer RNA	N-Formylmethionine tRNA	Escherichia coli BW25113	Bacteria	RF00005	70S Escherichia coli ribosome with Paenilamicin B2 bound with A- and P-site tRNA.	Electron microscopy	2.2	2	2024-07-24

Release history

Release	3.387	3.388
Date	2025-05-14	2025-05-21

Parents

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

Children

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

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	8CGN\|1\|Bb	Non-rotated 80S S. cerevisiae ribosome with ligands	ELECTRON MICROSCOPY	2.28	77
2	8BF7\|1\|4	Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site	ELECTRON MICROSCOPY	2.33	77
3	8BHL\|1\|4	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and Am6AA mRNA codon in the A-site after uncompleted di-peptide formation	ELECTRON MICROSCOPY	2.21	77
4	8BGE\|1\|4	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAm6A mRNA codon in the A-site after uncompleted di-peptide formation	ELECTRON MICROSCOPY	2.11	77
5	8BHP\|1\|4	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and m6AAA mRNA codon in the A-site after uncompleted di-peptide formation	ELECTRON MICROSCOPY	2.37	77
6	8BIL\|1\|4	Initiation complex of the E. coli 70S ribosome with mRNA containing AAA codon in the A-site.	ELECTRON MICROSCOPY	2.04	77
7	8BIM\|1\|4	Initiation complex of the E. coli 70S ribosome with mRNA containing AAm6A codon in the A-site	ELECTRON MICROSCOPY	2.04	77
8	8B0X\|1\|Z	Translating 70S ribosome in the unrotated state (P and E, tRNAs)	ELECTRON MICROSCOPY	1.55	75
9	9Q87\|1\|Z	Principles of ion binding to RNA inferred from the analysis of a 1.55 Angstrom resolution bacterial ribosome structure - Part I: Mg2+	ELECTRON MICROSCOPY	1.55	77
10	8IFB\|1\|6	Dibekacin-bound E.coli 70S ribosome in the PURE system	ELECTRON MICROSCOPY	2.43	77
11	4Y4P\|1\|2x	Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution	X-RAY DIFFRACTION	2.5	76
12	4W2F\|1\|CX	Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites	X-RAY DIFFRACTION	2.4	76
13	9G6J\|1\|PT	The structure of the Candida albicans ribosome with tRNA-fMet, mRNA, and compounds (GEN and MFQ) with strong density for the P-site tRNA	ELECTRON MICROSCOPY	2.15	76
14	8CVL\|1\|2x	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution	X-RAY DIFFRACTION	2.3	77
15	6XHW\|1\|2x	Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.50A resolution	X-RAY DIFFRACTION	2.5	76
16	8CVJ\|1\|2x	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMSEAC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-RAY DIFFRACTION	2.4	77
17	8CVK\|1\|2x	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-RAY DIFFRACTION	2.5	77
18	8G2A\|1\|2x	Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution	X-RAY DIFFRACTION	2.45	77
19	8G2A\|1\|1x	Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution	X-RAY DIFFRACTION	2.45	77
20	8CVK\|1\|1x	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-RAY DIFFRACTION	2.5	77
21	8CVJ\|1\|1x	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMSEAC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-RAY DIFFRACTION	2.4	77
22	8CVL\|1\|1x	Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution	X-RAY DIFFRACTION	2.3	77
23	6XHW\|1\|1x	Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.50A resolution	X-RAY DIFFRACTION	2.5	76
24	9DFC\|1\|1x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-RAY DIFFRACTION	2.5	77
25	8VTU\|1\|1x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-66, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-RAY DIFFRACTION	2.4	77
26	8VTU\|1\|2x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-66, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-RAY DIFFRACTION	2.4	77
27	9DFC\|1\|2x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-RAY DIFFRACTION	2.5	77
28	8VTX\|1\|2x	Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-RAY DIFFRACTION	2.4	77
29	8VTX\|1\|1x	Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution	X-RAY DIFFRACTION	2.4	77
30	6XHV\|1\|2x	Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution	X-RAY DIFFRACTION	2.4	76
31	6XHV\|1\|1x	Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution	X-RAY DIFFRACTION	2.4	76
32	4Y4P\|1\|1x	Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution	X-RAY DIFFRACTION	2.5	76
33	4W2F\|1\|AX	Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites	X-RAY DIFFRACTION	2.4	76
34	9D0J\|1\|1x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with BT-33, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-RAY DIFFRACTION	2.5	76
35	7RQ8\|1\|1x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution	X-RAY DIFFRACTION	2.5	76
36	7RQ8\|1\|2x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution	X-RAY DIFFRACTION	2.5	76
37	9D0J\|1\|2x	Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with BT-33, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution	X-RAY DIFFRACTION	2.5	76
38	8P2F\|1\|F	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane in post-translocational state	ELECTRON MICROSCOPY	2.44	76
39	9GHG\|1\|F	Staphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)	ELECTRON MICROSCOPY	2.22	76
40	8FTO\|1\|Z	E. coli 70S ribosome with an improved MS2 tag inserted in H98	ELECTRON MICROSCOPY	1.85	76
41	8EMM\|1\|Z	Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates	ELECTRON MICROSCOPY	2.1	76
42	8EIU\|1\|Z	E. coli 70S ribosome with A-loop mutations U2554C and U2555C	ELECTRON MICROSCOPY	2.24	74
43	7Y7F\|1\|Z	Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAC)	ELECTRON MICROSCOPY	2.43	77
44	7Y7E\|1\|Z	Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)	ELECTRON MICROSCOPY	2.41	77
45	7Y7G\|1\|Z	Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU)	ELECTRON MICROSCOPY	2.34	77
46	7K00\|1\|Z	Structure of the Bacterial Ribosome at 2 Angstrom Resolution	ELECTRON MICROSCOPY	1.98	76
47	9FBV\|1\|Z	70S Escherichia coli ribosome with P-site initiatior tRNA.	ELECTRON MICROSCOPY	2.4	73
48	9GHB\|1\|Z	Fusidic acid-locked Escherichia coli 70S ribosome with Staphylococcus aureus EF-G in post-translocational state (POST)	ELECTRON MICROSCOPY	2.21	76
49	9GHE\|1\|Z	Staphylococcus aureus FusB bound to the small subunit of the Escherichia coli 70S ribosome (FusB-70S:SSU)	ELECTRON MICROSCOPY	1.87	76
50	9GHD\|1\|Z	Escherichia coli 70S ribosome in complex with Staphylococcus aureus FusB-EF-G (FusB-EF-G-70S*)	ELECTRON MICROSCOPY	2.41	76
51	9GHF\|1\|Z	Staphylococcus aureus FusB bound to the large subunit of the Escherichia coli 70S ribosome (FusB-70S:LSU)	ELECTRON MICROSCOPY	2.4	76
52	8AYE\|1\|Z	E. coli 70S ribosome bound to thermorubin and fMet-tRNA	ELECTRON MICROSCOPY	1.96	76
53	9N2B\|1\|Pt	Impacts of ribosomal RNA sequence variation on gene expression and phenotype: Cryo-EM structure of the rrsB ribosome (BBB-70S)	ELECTRON MICROSCOPY	2.2	77
54	9N2C\|1\|Pt	Impacts of ribosomal RNA sequence variation on gene expression and phenotype: Cryo-EM structure of the rrsH ribosome (HBB-70S)	ELECTRON MICROSCOPY	2.4	77
55	6XZ7\|1\|f	E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).	ELECTRON MICROSCOPY	2.1	76
56	8G6Y\|1\|Z	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	75
57	8G6X\|1\|Z	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	75
58	8G6W\|1\|Z	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	75
59	9G6J\|1\|AT	The structure of the Candida albicans ribosome with tRNA-fMet, mRNA, and compounds (GEN and MFQ) with strong density for the P-site tRNA	ELECTRON MICROSCOPY	2.15	76
60	8EMM\|1\|Y	Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates	ELECTRON MICROSCOPY	2.1	76
61	8EIU\|1\|Y	E. coli 70S ribosome with A-loop mutations U2554C and U2555C	ELECTRON MICROSCOPY	2.24	74
62	9GUU\|1\|W	30S mRNA delivery complex (consensus)	ELECTRON MICROSCOPY	2.5	77
63	9GHG\|1\|D	Staphylococcus aureus FusB bound to the small subunit of the S. aureus 70S ribosome (FusB-Sa70S:SSU)	ELECTRON MICROSCOPY	2.22	77
64	8P2F\|1\|D	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane in post-translocational state	ELECTRON MICROSCOPY	2.44	77
65	8P2H\|1\|D	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid with a tRNA in pe/E chimeric state	ELECTRON MICROSCOPY	2.49	77
66	8P2G\|1\|D	Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid cyclopentane with a tRNA in pe/E chimeric state	ELECTRON MICROSCOPY	2.02	77
67	9GHA\|1\|8	Fusidic acid-locked Escherichia coli 70S ribosome with Staphylococcus aureus EF-G and a tRNA in pe/E chimeric state (CHI)	ELECTRON MICROSCOPY	2.24	77
68	8CGN\|1\|Cc	Non-rotated 80S S. cerevisiae ribosome with ligands	ELECTRON MICROSCOPY	2.28	77
69	8CIV\|1\|Cc	Translocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin	ELECTRON MICROSCOPY	2.47	77
70	8CEH\|1\|Cc	Translocation intermediate 4 (TI-4) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin	ELECTRON MICROSCOPY	2.05	77
71	8CDR\|1\|Cc	Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin	ELECTRON MICROSCOPY	2.04	77
72	8CCS\|1\|Cc	80S S. cerevisiae ribosome with ligands in hybrid-1 pre-translocation (PRE-H1) complex	ELECTRON MICROSCOPY	1.97	77
73	7TOP\|1\|APTN	Yeast 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein PR20	ELECTRON MICROSCOPY	2.4	77
74	8R6C\|1\|5	70S Escherichia coli ribosome with Paenilamicin B2 bound with A- and P-site tRNA.	ELECTRON MICROSCOPY	2.2	2

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_2.5_35542.149 Obsolete

Release history

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