RNA 3D Hub //

Equivalence class NR_4.0_21280.20 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
17O7Y|1|A2 (rep)Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)Electron microscopy2.22021-06-02
27O7Z|1|A2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)Electron microscopy2.42021-06-02
37JQB|1|ASmall subunit ribosomal RNArRNAOryctolagus cuniculusEukaryaRF01960SARS-CoV-2 Nsp1 and rabbit 40S ribosome complexElectron microscopy2.72020-12-02
46SGC|1|A1Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome stalled on a poly(A) tailElectron microscopy2.82019-12-04
57TOR|1|A18SSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20Electron microscopy2.92022-05-25
67O80|1|A2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery siteElectron microscopy2.92021-06-02
77NWI|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin SElectron microscopy3.132021-07-07
86YAL|1|2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian 48S late-stage initiation complex with beta-globin mRNAElectron microscopy32020-04-08
96R5Q|1|KSmall subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of XBP1u-paused ribosome nascent chain complex (post-state)Electron microscopy32019-07-10
107TOQ|1|A18SSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein poly-PRElectron microscopy3.12022-05-25
117O81|1|A2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknotElectron microscopy3.12021-06-02
126ZVK|1|K3Small subunit ribosomal RNA18S RIBOSOMAL RNAOryctolagus cuniculusEukaryaRF01960The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanismElectron microscopy3.492020-12-23
136P5I|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1)Electron microscopy3.12019-09-18
146P5K|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)Electron microscopy3.12019-09-18
156P5J|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)Electron microscopy3.12019-09-18
166P4G|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 1)Electron microscopy3.12019-09-18
177MDZ|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF0196080S rabbit ribosome stalled with benzamide-CHXElectron microscopy3.22021-09-01
186R6P|1|KSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of XBP1u-paused ribosome nascent chain complex (rotated state)Electron microscopy3.12019-07-10
196P4H|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 2)Electron microscopy3.22019-09-18
206P5N|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1Electron microscopy3.22019-09-25
216D9J|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.Electron microscopy3.22018-06-06
227JQC|1|ASmall subunit ribosomal RNArRNAOryctolagus cuniculusEukaryaRF01960SARS-CoV-2 Nsp1, CrPV IRES and rabbit 40S ribosome complexElectron microscopy3.32020-12-02
235LZS|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin BElectron microscopy3.312016-11-30
246W2T|1|aSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the closed state (Class 2)Electron microscopy3.362020-04-22
257A01|1|K3Small subunit ribosomal RNA18S RIBOSOMAL RNAOryctolagus cuniculusEukaryaRF01960The Halastavi arva virus intergenic region IRES promotes translation by the simplest possible initiation mechanismElectron microscopy3.62020-12-30
266MTD|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel)Electron microscopy3.32018-11-21
275LZV|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1.Electron microscopy3.352016-11-30
286D90|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1.Electron microscopy3.22018-06-06
296YAN|1|2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian 48S late-stage translation initiation complex with histone 4 mRNAElectron microscopy3.482020-04-08
306MTC|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state)Electron microscopy3.42018-11-21
316MTE|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)Electron microscopy3.42018-11-21
326W2S|1|ASmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the open state (Class 1)Electron microscopy3.472020-04-22
336GZ5|1|B1Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)Electron microscopy3.52018-12-05
345LZZ|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)Electron microscopy3.472016-11-30
355LZW|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a truncated mRNA.Electron microscopy3.532016-11-30
365LZX|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a UGA stop codon.Electron microscopy3.672016-11-30
376GZ3|1|B1Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)Electron microscopy3.62018-12-05
387NWG|1|A2Small subunit ribosomal RNA18S Ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian pre-termination 80S ribosome with Hybrid P/E- and A/P-site tRNA's bound by Blasticidin S.Electron microscopy3.82021-07-07
396GZ4|1|B1Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-2 (TI-POST-2)Electron microscopy3.62018-12-05
405LZT|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian ribosomal termination complex with eRF1 and eRF3.Electron microscopy3.652016-11-30
416YAM|1|2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian 48S late-stage translation initiation complex (LS48S+eIF3 IC) with beta-globin mRNAElectron microscopy3.62020-04-08
426MTB|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with P- and Z-site tRNAs (unrotated state)Electron microscopy3.62018-11-21
436HCJ|1|A2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the rabbit 80S ribosome on globin mRNA in the rotated state with A/P and P/E tRNAsElectron microscopy3.82018-10-17
446R6G|1|KSmall subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of XBP1u-paused ribosome nascent chain complex with SRP.Electron microscopy3.72019-07-10
455LZU|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian ribosomal termination complex with accommodated eRF1Electron microscopy3.752016-11-30
466HCF|1|A1Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the rabbit 80S ribosome stalled on globin mRNA at the stop codonElectron microscopy3.92018-10-17
476R7Q|1|KSmall subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of XBP1u-paused ribosome nascent chain complex with Sec61.Electron microscopy3.92019-07-10
483JAH|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codonElectron microscopy3.452015-08-12
495LZY|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a polyadenylated mRNA.Electron microscopy3.992016-11-30
505FLX|1|1Small subunit ribosomal RNA18S RRNAOryctolagus cuniculusEukaryaRF01960Mammalian 40S HCV-IRES complexElectron microscopy3.92015-12-23
513JAG|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAA stop codonElectron microscopy3.652015-08-12
523JAI|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UGA stop codonElectron microscopy3.652015-08-12
533JAN|1|S2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the scanning state of the mammalian SRP-ribosome complexElectron microscopy3.752015-08-05
543JAJ|1|S2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the engaged state of the mammalian SRP-ribosome complexElectron microscopy3.752015-08-05

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
7A01|1|K3		The Halastavi arva virus intergenic region IRES promotes translation by the simplest possible initiation mechanismELECTRON MICROSCOPY3.61801
2
6ZVK|1|K3		The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanismELECTRON MICROSCOPY3.491869
3
3JAJ|1|S2		Structure of the engaged state of the mammalian SRP-ribosome complexELECTRON MICROSCOPY3.751742
4
3JAN|1|S2		Structure of the scanning state of the mammalian SRP-ribosome complexELECTRON MICROSCOPY3.751742
5
3JAI|1|9		Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UGA stop codonELECTRON MICROSCOPY3.651719
6
3JAG|1|9		Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAA stop codonELECTRON MICROSCOPY3.651719
7
3JAH|1|9		Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codonELECTRON MICROSCOPY3.451719
8
7NWI|1|9		Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin SELECTRON MICROSCOPY3.131719
9
6YAM|1|2		Mammalian 48S late-stage translation initiation complex (LS48S+eIF3 IC) with beta-globin mRNAELECTRON MICROSCOPY3.61742
10
6YAL|1|2		Mammalian 48S late-stage initiation complex with beta-globin mRNAELECTRON MICROSCOPY31743
11
6YAN|1|2		Mammalian 48S late-stage translation initiation complex with histone 4 mRNAELECTRON MICROSCOPY3.481743
12
6HCJ|1|A2		Structure of the rabbit 80S ribosome on globin mRNA in the rotated state with A/P and P/E tRNAsELECTRON MICROSCOPY3.81740
13
7NWG|1|A2		Mammalian pre-termination 80S ribosome with Hybrid P/E- and A/P-site tRNA's bound by Blasticidin S.ELECTRON MICROSCOPY3.81740
14
6HCF|1|A1		Structure of the rabbit 80S ribosome stalled on globin mRNA at the stop codonELECTRON MICROSCOPY3.91732
15
6D90|1|2		Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1.ELECTRON MICROSCOPY3.21697
16
6P5N|1|2		Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1ELECTRON MICROSCOPY3.21697
17
7JQB|1|A		SARS-CoV-2 Nsp1 and rabbit 40S ribosome complexELECTRON MICROSCOPY2.71697
18
7TOQ|1|A18S		Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein poly-PRELECTRON MICROSCOPY3.11690
19
6R6P|1|K		Structure of XBP1u-paused ribosome nascent chain complex (rotated state)ELECTRON MICROSCOPY3.11698
20
7TOR|1|A18S		Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20ELECTRON MICROSCOPY2.91691
21
6R6G|1|K		Structure of XBP1u-paused ribosome nascent chain complex with SRP.ELECTRON MICROSCOPY3.71698
22
6R5Q|1|K		Structure of XBP1u-paused ribosome nascent chain complex (post-state)ELECTRON MICROSCOPY31698
23
6R7Q|1|K		Structure of XBP1u-paused ribosome nascent chain complex with Sec61.ELECTRON MICROSCOPY3.91698
24
6MTC|1|9		Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state)ELECTRON MICROSCOPY3.41664
25
6MTB|1|9		Rabbit 80S ribosome with P- and Z-site tRNAs (unrotated state)ELECTRON MICROSCOPY3.61664
26
6SGC|1|A1		Rabbit 80S ribosome stalled on a poly(A) tailELECTRON MICROSCOPY2.81697
27
5LZY|1|9		Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a polyadenylated mRNA.ELECTRON MICROSCOPY3.991698
28
5LZZ|1|9		Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)ELECTRON MICROSCOPY3.471698
29
5LZX|1|9		Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a UGA stop codon.ELECTRON MICROSCOPY3.671698
30
5LZW|1|9		Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a truncated mRNA.ELECTRON MICROSCOPY3.531698
31
5LZU|1|9		Structure of the mammalian ribosomal termination complex with accommodated eRF1ELECTRON MICROSCOPY3.751698
32
5LZV|1|9		Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1.ELECTRON MICROSCOPY3.351698
33
5LZT|1|9		Structure of the mammalian ribosomal termination complex with eRF1 and eRF3.ELECTRON MICROSCOPY3.651698
34
5LZS|1|9		Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin BELECTRON MICROSCOPY3.311697
35
7MDZ|1|9		80S rabbit ribosome stalled with benzamide-CHXELECTRON MICROSCOPY3.21697
36
7O7Y|1|A2		Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)ELECTRON MICROSCOPY2.21688
37
7O7Z|1|A2		Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)ELECTRON MICROSCOPY2.41688
38
7O80|1|A2		Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery siteELECTRON MICROSCOPY2.91688
39
7O81|1|A2		Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknotELECTRON MICROSCOPY3.11688
40
6GZ5|1|B1		tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)ELECTRON MICROSCOPY3.51708
41
7JQC|1|A		SARS-CoV-2 Nsp1, CrPV IRES and rabbit 40S ribosome complexELECTRON MICROSCOPY3.31697
42
6P4H|1|2		Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 2)ELECTRON MICROSCOPY3.21697
43
6P4G|1|2		Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 1)ELECTRON MICROSCOPY3.11697
44
6P5K|1|2		Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)ELECTRON MICROSCOPY3.11697
45
6P5I|1|2		Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1)ELECTRON MICROSCOPY3.11697
46
6P5J|1|2		Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)ELECTRON MICROSCOPY3.11697
47
6MTE|1|9		Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)ELECTRON MICROSCOPY3.41664
48
6MTD|1|9		Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel)ELECTRON MICROSCOPY3.31692
49
6GZ4|1|B1		tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-2 (TI-POST-2)ELECTRON MICROSCOPY3.61708
50
6GZ3|1|B1		tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-1 (TI-POST-1)ELECTRON MICROSCOPY3.61708
51
5FLX|1|1		Mammalian 40S HCV-IRES complexELECTRON MICROSCOPY3.91708
52
6W2T|1|a		Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the closed state (Class 2)ELECTRON MICROSCOPY3.361697
53
6W2S|1|A		Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the open state (Class 1)ELECTRON MICROSCOPY3.471697
54
6D9J|1|2		Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.ELECTRON MICROSCOPY3.21697

Coloring options:

Copyright 2024 BGSU RNA group. Page generated in 0.0212 s