#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
14YBB|1|DB (rep)5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001High-resolution structure of the Escherichia coli ribosomeX-ray diffraction2.12015-03-18
24YBB|1|CB5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001High-resolution structure of the Escherichia coli ribosomeX-ray diffraction2.12015-03-18
38B0X|1|b5S ribosomal RNA5S rRNAEscherichia coli BBacteriaRF00001Translating 70S ribosome in the unrotated state (P and E, tRNAs)Electron microscopy1.552022-11-30
48CEU|1|b5S ribosomal RNA5S rRNAEscherichia coli BW25113BacteriaRF00001Retapamulin and Capreomycin bound to the 50S subunitElectron microscopy1.832023-07-26
58FTO|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001E. coli 70S ribosome with an improved MS2 tag inserted in H98Electron microscopy1.852023-08-02
68AYE|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001E. coli 70S ribosome bound to thermorubin and fMet-tRNAElectron microscopy1.962023-03-01
77K00|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of the Bacterial Ribosome at 2 Angstrom ResolutionElectron microscopy1.982020-09-23
88CGD|1|b5S ribosomal RNA5S rRNAEscherichia coli BW25113BacteriaRF00001Clindamycin bound to the 50S subunitElectron microscopy1.982023-07-26
98BIL|1|15S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Initiation complex of the E. coli 70S ribosome with mRNA containing AAA codon in the A-site.Electron microscopy2.042023-08-16
108G6W|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of WT E.coli 70S ribosome complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site ortho-aminobenzoic acid charged NH-tRNAPheElectron microscopy2.022023-04-05
118BIM|1|15S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Initiation complex of the E. coli 70S ribosome with mRNA containing AAm6A codon in the A-siteElectron microscopy2.042023-08-16
128E30|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound streptogramin A analog 3142Electron microscopy1.912023-06-28
138G6Y|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure 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-tRNAPheElectron microscopy2.092023-04-05
148E3O|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to solithromycin and VM1Electron microscopy1.992023-06-28
158EMM|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substratesElectron microscopy2.12023-05-31
168ANA|1|b5S ribosomal RNA5S ribosomal RNAEscherichia coli BW25113BacteriaRF00001Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the 50S ribosomal subunitElectron microscopy2.12023-03-08
178BGE|1|15S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAm6A mRNA codon in the A-site after uncompleted di-peptide formationElectron microscopy2.112023-08-16
188E49|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to antibiotic analog SLC31Electron microscopy2.052023-06-28
196XZ7|1|B5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).Electron microscopy2.12020-07-22
207QQ3|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coli K-12BacteriaRF00001Cryo-EM structure of the E.coli 50S ribosomal subunit in complex with the antibiotic Myxovalargin A.Electron microscopy2.12023-01-18
218E43|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound streptogramin A analog 3336Electron microscopy2.092023-06-28
228BHL|1|15S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and Am6AA mRNA codon in the A-site after uncompleted di-peptide formationElectron microscopy2.212023-08-16
238E41|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to tiamulin and VS1Electron microscopy2.132023-06-28
247ZP8|1|a5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF0000170S E. coli ribosome with a stalled filamin domain 5 nascent chainElectron microscopy2.22022-08-10
258EIU|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001E. coli 70S ribosome with A-loop mutations U2554C and U2555CElectron microscopy2.242023-02-01
268E33|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound streptogramin analog SAB001Electron microscopy2.232023-06-28
277LVK|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Cfr-modified 50S subunit from Escherichia coliElectron microscopy2.22021-12-15
286PJ6|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001High resolution cryo-EM structure of E.coli 50SElectron microscopy2.22020-01-22
298BF7|1|15S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-siteElectron microscopy2.332023-08-16
307N1P|1|55S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformationElectron microscopy2.332021-07-14
318AKN|1|b5S ribosomal RNA5S ribosomal RNAEscherichia coli BW25113BacteriaRF00001Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the terminating ribosomeElectron microscopy2.32023-03-08
328G6X|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site meta-aminobenzoic acid charged NH-tRNAPheElectron microscopy2.312023-03-22
337PJS|1|B5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001Structure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C)Electron microscopy2.352021-10-20
347Z20|1|a5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF0000170S E. coli ribosome with an extended uL23 loop from Candidatus marinimicrobia and a stalled filamin domain 5 nascent chainElectron microscopy2.292022-08-10
357Y7G|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU)Electron microscopy2.342023-10-25
368BHP|1|15S ribosomal RNA5S rRNAEscherichia coli K-12BacteriaRF00001Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and m6AAA mRNA codon in the A-site after uncompleted di-peptide formationElectron microscopy2.372023-08-16
377O1A|1|BB5S ribosomal RNARibosomal RNA 5SEscherichia coli K-12BacteriaRF00001Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophanElectron microscopy2.42021-09-01
388E3M|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to L-linker solithromycin conjugateElectron microscopy2.252023-06-28
398E45|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to antibiotic analog SLC17Electron microscopy2.32023-06-28
407S1H|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Wild-type Escherichia coli ribosome with antibiotic linezolidElectron microscopy2.352021-11-17
418E32|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1Electron microscopy2.352023-06-28
428E46|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to antibiotic analog SLC21Electron microscopy2.322023-06-28
438E3L|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to D-linker solithromycin conjugateElectron microscopy2.352023-06-28
447Y7E|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)Electron microscopy2.412023-10-25
458E48|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to antibiotic analog SLC30Electron microscopy2.272023-06-28
467Y7F|1|b5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAC)Electron microscopy2.432023-10-25
478E42|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to tiamulin and azithromycinElectron microscopy2.292023-06-28
488E35|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound SAB002Electron microscopy2.272023-06-28
497S1K|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Cfr-modified Escherichia coli stalled ribosome with antibiotic radezolidElectron microscopy2.422022-01-19
507BL4|1|B5S ribosomal RNA5S ribosomal RNAEscherichia coli K-12BacteriaRF00001in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particleElectron microscopy2.42021-05-12
518E47|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to antibiotic analog SLC26Electron microscopy2.322023-06-28
527S1J|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Wild-type Escherichia coli ribosome with antibiotic radezolidElectron microscopy2.472022-03-02
537S1G|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001wild-type Escherichia coli stalled ribosome with antibiotic linezolidElectron microscopy2.482021-11-17
547S1I|1|J5S ribosomal RNA5S rRNAEscherichia coliBacteriaRF00001Wild-type Escherichia coli stalled ribosome with antibiotic radezolidElectron microscopy2.482022-03-02
558E36|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound streptogramin A analog 3146Electron microscopy2.382023-06-28
566PC6|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound 47Electron microscopy2.52020-06-17
576PCR|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound 40oElectron microscopy2.52020-06-17
586PC7|1|J5S ribosomal RNA5S ribosomal RNAEscherichia coliBacteriaRF00001E. coli 50S ribosome bound to compound 46Electron microscopy2.52020-06-17
598CGV|1|b5S ribosomal RNA5S rRNAEscherichia coli BW25113BacteriaRF00001Tiamulin bound to the 50S subunitElectron microscopy1.662023-08-02
608CGK|1|b5S ribosomal RNA5S rRNAEscherichia coli BW25113BacteriaRF00001Lincomycin and Avilamycin bound to the 50S subunitElectron microscopy1.642023-07-19
618CAM|1|b5S ribosomal RNA5S rRNAEscherichia coli BW25113BacteriaRF00001Evernimicin bound to the 50S subunitElectron microscopy1.862023-07-26

Release history

Release3.3063.3073.3083.3093.310
Date2023-10-252023-11-012023-11-082023-11-152023-11-24

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).
#SPDBTitleMethodResolutionLength
1
7ZP8|1|a
70S E. coli ribosome with a stalled filamin domain 5 nascent chainELECTRON MICROSCOPY2.2118
2
7Z20|1|a
70S E. coli ribosome with an extended uL23 loop from Candidatus marinimicrobia and a stalled filamin domain 5 nascent chainELECTRON MICROSCOPY2.29118
3
7PJS|1|B
Structure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C)ELECTRON MICROSCOPY2.35120
4
7LVK|1|J
Cfr-modified 50S subunit from Escherichia coliELECTRON MICROSCOPY2.2118
5
6PJ6|1|J
High resolution cryo-EM structure of E.coli 50SELECTRON MICROSCOPY2.2118
6
4YBB|1|CB
High-resolution structure of the Escherichia coli ribosomeX-RAY DIFFRACTION2.1118
7
4YBB|1|DB
High-resolution structure of the Escherichia coli ribosomeX-RAY DIFFRACTION2.1120
8
8CGD|1|b
Clindamycin bound to the 50S subunitELECTRON MICROSCOPY1.98119
9
8CAM|1|b
Evernimicin bound to the 50S subunitELECTRON MICROSCOPY1.8634
10
8CGK|1|b
Lincomycin and Avilamycin bound to the 50S subunitELECTRON MICROSCOPY1.6439
11
6XZ7|1|B
E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).ELECTRON MICROSCOPY2.1120
12
7N1P|1|5
Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformationELECTRON MICROSCOPY2.33120
13
8ANA|1|b
Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the 50S ribosomal subunitELECTRON MICROSCOPY2.1119
14
8CGV|1|b
Tiamulin bound to the 50S subunitELECTRON MICROSCOPY1.6656
15
8AKN|1|b
Cryo-EM structure of the proline-rich antimicrobial peptide drosocin bound to the terminating ribosomeELECTRON MICROSCOPY2.3119
16
8CEU|1|b
Retapamulin and Capreomycin bound to the 50S subunitELECTRON MICROSCOPY1.83119
17
8EMM|1|b
Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substratesELECTRON MICROSCOPY2.1119
18
8FTO|1|b
E. coli 70S ribosome with an improved MS2 tag inserted in H98ELECTRON MICROSCOPY1.85119
19
7K00|1|b
Structure of the Bacterial Ribosome at 2 Angstrom ResolutionELECTRON MICROSCOPY1.98119
20
8AYE|1|b
E. coli 70S ribosome bound to thermorubin and fMet-tRNAELECTRON MICROSCOPY1.96119
21
8G6Y|1|b
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-tRNAPheELECTRON MICROSCOPY2.09119
22
8G6W|1|b
Structure of WT E.coli 70S ribosome complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site ortho-aminobenzoic acid charged NH-tRNAPheELECTRON MICROSCOPY2.02119
23
8G6X|1|b
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-tRNAPheELECTRON MICROSCOPY2.31119
24
8EIU|1|b
E. coli 70S ribosome with A-loop mutations U2554C and U2555CELECTRON MICROSCOPY2.24119
25
8B0X|1|b
Translating 70S ribosome in the unrotated state (P and E, tRNAs)ELECTRON MICROSCOPY1.55119
26
7Y7F|1|b
Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAC)ELECTRON MICROSCOPY2.43119
27
7Y7E|1|b
Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)ELECTRON MICROSCOPY2.41119
28
7Y7G|1|b
Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU)ELECTRON MICROSCOPY2.34119
29
7O1A|1|BB
Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophanELECTRON MICROSCOPY2.4120
30
7QQ3|1|J
Cryo-EM structure of the E.coli 50S ribosomal subunit in complex with the antibiotic Myxovalargin A.ELECTRON MICROSCOPY2.1118
31
8E49|1|J
E. coli 50S ribosome bound to antibiotic analog SLC31ELECTRON MICROSCOPY2.05118
32
7S1J|1|J
Wild-type Escherichia coli ribosome with antibiotic radezolidELECTRON MICROSCOPY2.47118
33
7S1K|1|J
Cfr-modified Escherichia coli stalled ribosome with antibiotic radezolidELECTRON MICROSCOPY2.42118
34
7S1H|1|J
Wild-type Escherichia coli ribosome with antibiotic linezolidELECTRON MICROSCOPY2.35118
35
7S1G|1|J
wild-type Escherichia coli stalled ribosome with antibiotic linezolidELECTRON MICROSCOPY2.48118
36
7S1I|1|J
Wild-type Escherichia coli stalled ribosome with antibiotic radezolidELECTRON MICROSCOPY2.48118
37
8E3M|1|J
E. coli 50S ribosome bound to L-linker solithromycin conjugateELECTRON MICROSCOPY2.25118
38
8E42|1|J
E. coli 50S ribosome bound to tiamulin and azithromycinELECTRON MICROSCOPY2.29118
39
8E36|1|J
E. coli 50S ribosome bound to compound streptogramin A analog 3146ELECTRON MICROSCOPY2.38118
40
8E41|1|J
E. coli 50S ribosome bound to tiamulin and VS1ELECTRON MICROSCOPY2.13118
41
8E33|1|J
E. coli 50S ribosome bound to compound streptogramin analog SAB001ELECTRON MICROSCOPY2.23118
42
8E30|1|J
E. coli 50S ribosome bound to compound streptogramin A analog 3142ELECTRON MICROSCOPY1.91118
43
8E3O|1|J
E. coli 50S ribosome bound to solithromycin and VM1ELECTRON MICROSCOPY1.99118
44
8E43|1|J
E. coli 50S ribosome bound to compound streptogramin A analog 3336ELECTRON MICROSCOPY2.09118
45
6PCR|1|J
E. coli 50S ribosome bound to compound 40oELECTRON MICROSCOPY2.5118
46
6PC6|1|J
E. coli 50S ribosome bound to compound 47ELECTRON MICROSCOPY2.5118
47
6PC7|1|J
E. coli 50S ribosome bound to compound 46ELECTRON MICROSCOPY2.5118
48
7BL4|1|B
in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particleELECTRON MICROSCOPY2.4119
49
8E46|1|J
E. coli 50S ribosome bound to antibiotic analog SLC21ELECTRON MICROSCOPY2.32118
50
8E45|1|J
E. coli 50S ribosome bound to antibiotic analog SLC17ELECTRON MICROSCOPY2.3118
51
8E32|1|J
E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1ELECTRON MICROSCOPY2.35118
52
8E3L|1|J
E. coli 50S ribosome bound to D-linker solithromycin conjugateELECTRON MICROSCOPY2.35118
53
8BF7|1|1
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-siteELECTRON MICROSCOPY2.33120
54
8BGE|1|1
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 formationELECTRON MICROSCOPY2.11120
55
8BHL|1|1
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 formationELECTRON MICROSCOPY2.21120
56
8BIL|1|1
Initiation complex of the E. coli 70S ribosome with mRNA containing AAA codon in the A-site.ELECTRON MICROSCOPY2.04120
57
8BIM|1|1
Initiation complex of the E. coli 70S ribosome with mRNA containing AAm6A codon in the A-siteELECTRON MICROSCOPY2.04120
58
8BHP|1|1
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 formationELECTRON MICROSCOPY2.37120
59
8E48|1|J
E. coli 50S ribosome bound to antibiotic analog SLC30ELECTRON MICROSCOPY2.27118
60
8E47|1|J
E. coli 50S ribosome bound to antibiotic analog SLC26ELECTRON MICROSCOPY2.32118
61
8E35|1|J
E. coli 50S ribosome bound to compound SAB002ELECTRON MICROSCOPY2.27118

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