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Equivalence class NR_3.5_21280.29 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
27OYD|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Cryo-EM structure of a rabbit 80S ribosome with zebrafish Dap1bElectron microscopy2.32022-07-20
37O7Z|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
47JQB|1|ASmall subunit ribosomal RNArRNAOryctolagus cuniculusEukaryaRF01960SARS-CoV-2 Nsp1 and rabbit 40S ribosome complexElectron microscopy2.72020-12-02
57ZJW|1|S2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome as it decodes the Sec-UGA codonElectron microscopy2.82022-10-19
67UCK|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF0196080S translation initiation complex with ac4c(-1) mRNA and HarringtonineElectron microscopy2.82022-06-01
76SGC|1|A1Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome stalled on a poly(A) tailElectron microscopy2.82019-12-04
87TOR|1|A18SSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20Electron microscopy2.92022-05-25
97O80|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
108P2K|1|A2Small subunit ribosomal RNA18s rRNAOryctolagus cuniculusEukaryaRF01960Ternary complex of translating ribosome, NAC and METAP1Electron microscopy2.92023-07-19
117NWI|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin SElectron microscopy3.132021-07-07
126YAL|1|2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian 48S late-stage initiation complex with beta-globin mRNAElectron microscopy32020-04-08
138BHF|1|A3Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Cryo-EM structure of stalled rabbit 80S ribosomes in complex with human CCR4-NOT and CNOT4Electron microscopy3.12023-09-06
146R5Q|1|KSmall subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of XBP1u-paused ribosome nascent chain complex (post-state)Electron microscopy32019-07-10
157TOQ|1|A18SSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein poly-PRElectron microscopy3.12022-05-25
167ZJX|1|S2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome programmed with SECIS and SBP2Electron microscopy3.12022-09-07
177O81|1|A2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknotElectron microscopy3.12021-06-02
186ZVK|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
196P5I|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
206P5K|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
216P5J|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
227UCJ|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S translation initiation complex with mRNA and HarringtonineElectron microscopy3.12022-06-01
236P4G|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
247MDZ|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF0196080S rabbit ribosome stalled with benzamide-CHXElectron microscopy3.22021-09-01
256R6P|1|KSmall subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of XBP1u-paused ribosome nascent chain complex (rotated state)Electron microscopy3.12019-07-10
266P4H|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
276P5N|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
286D9J|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.Electron microscopy3.22018-06-06
297JQC|1|ASmall subunit ribosomal RNArRNAOryctolagus cuniculusEukaryaRF01960SARS-CoV-2 Nsp1, CrPV IRES and rabbit 40S ribosome complexElectron microscopy3.32020-12-02
305LZS|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
316W2T|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
326MTD|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel)Electron microscopy3.32018-11-21
335LZV|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
346D90|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
357SYS|1|2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of the delta dII IRES eIF2-containing 48S initiation complex, closed conformation. Structure 12(delta dII).Electron microscopy3.52022-07-27
368BTK|1|A2Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Structure of the TRAP complex with the Sec translocon and a translating ribosomeElectron microscopy3.52023-05-24
376YAN|1|2Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Mammalian 48S late-stage translation initiation complex with histone 4 mRNAElectron microscopy3.482020-04-08
386MTC|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state)Electron microscopy3.42018-11-21
396MTE|1|9Small subunit ribosomal RNA18S rRNAOryctolagus cuniculusEukaryaRF01960Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)Electron microscopy3.42018-11-21
406W2S|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
416GZ5|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
425LZZ|1|9Small subunit ribosomal RNA18S ribosomal RNAOryctolagus cuniculusEukaryaRF01960Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)Electron microscopy3.472016-11-30
433JAH|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

Release history

Release3.2993.3003.3013.3023.3033.3043.3053.3063.3073.3083.3093.3103.3113.3123.3133.314
Date2023-09-062023-09-132023-09-202023-09-272023-10-042023-10-112023-10-182023-10-252023-11-012023-11-082023-11-152023-11-242023-11-292023-12-062023-12-132023-12-20

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_3.5_21280.29NR_3.5_21280.283.299(42) 7O80|1|A2, 7O7Z|1|A2, 7O7Y|1|A2, 7NWI|1|9, 7MDZ|1|9, 7JQC|1|A, 7JQB|1|A, 6ZVK|1|K3, 6YAN|1|2, 6YAL|1|2, 6W2T|1|a, 6W2S|1|A, 6SGC|1|A1, 6R6P|1|K, 6R5Q|1|K, 6P5N|1|2, 6P5K|1|2, 6P5J|1|2, 6P5I|1|2, 6P4H|1|2, 6P4G|1|2, 6MTE|1|9, 8P2K|1|A2, 6MTD|1|9, 8BTK|1|A2, 6MTC|1|9, 7ZJX|1|S2, 6GZ5|1|B1, 7ZJW|1|S2, 6D9J|1|2, 7UCK|1|9, 6D90|1|2, 7UCJ|1|9, 5LZZ|1|9, 7TOR|1|A18S, 5LZV|1|9, 7TOQ|1|A18S, 5LZS|1|9, 7SYS|1|2, 3JAH|1|9, 7OYD|1|9, 7O81|1|A2(1) 8BHF|1|A3(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

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
16YAL|1|2Mammalian 48S late-stage initiation complex with beta-globin mRNAELECTRON MICROSCOPY31743
26YAN|1|2Mammalian 48S late-stage translation initiation complex with histone 4 mRNAELECTRON MICROSCOPY3.481743
37NWI|1|9Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin SELECTRON MICROSCOPY3.131719
43JAH|1|9Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codonELECTRON MICROSCOPY3.451719
56ZVK|1|K3The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanismELECTRON MICROSCOPY3.491869
66GZ5|1|B1tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)ELECTRON MICROSCOPY3.51708
77SYS|1|2Structure of the delta dII IRES eIF2-containing 48S initiation complex, closed conformation. Structure 12(delta dII).ELECTRON MICROSCOPY3.51697
86D90|1|2Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1.ELECTRON MICROSCOPY3.21697
96P5N|1|2Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1ELECTRON MICROSCOPY3.21697
107UCJ|1|9Mammalian 80S translation initiation complex with mRNA and HarringtonineELECTRON MICROSCOPY3.11664
117UCK|1|980S translation initiation complex with ac4c(-1) mRNA and HarringtonineELECTRON MICROSCOPY2.81664
127TOR|1|A18SMammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20ELECTRON MICROSCOPY2.91691
136R5Q|1|KStructure of XBP1u-paused ribosome nascent chain complex (post-state)ELECTRON MICROSCOPY31698
146MTC|1|9Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state)ELECTRON MICROSCOPY3.41664
158BHF|1|A3Cryo-EM structure of stalled rabbit 80S ribosomes in complex with human CCR4-NOT and CNOT4ELECTRON MICROSCOPY3.11697
167MDZ|1|980S rabbit ribosome stalled with benzamide-CHXELECTRON MICROSCOPY3.21697
176SGC|1|A1Rabbit 80S ribosome stalled on a poly(A) tailELECTRON MICROSCOPY2.81697
185LZZ|1|9Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)ELECTRON MICROSCOPY3.471698
195LZV|1|9Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1.ELECTRON MICROSCOPY3.351698
205LZS|1|9Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin BELECTRON MICROSCOPY3.311697
216R6P|1|KStructure of XBP1u-paused ribosome nascent chain complex (rotated state)ELECTRON MICROSCOPY3.11698
227TOQ|1|A18SMammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein poly-PRELECTRON MICROSCOPY3.11690
237O81|1|A2Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknotELECTRON MICROSCOPY3.11688
247ZJW|1|S2Rabbit 80S ribosome as it decodes the Sec-UGA codonELECTRON MICROSCOPY2.81689
257O80|1|A2Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery siteELECTRON MICROSCOPY2.91688
267O7Z|1|A2Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)ELECTRON MICROSCOPY2.41688
277O7Y|1|A2Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)ELECTRON MICROSCOPY2.21688
288BTK|1|A2Structure of the TRAP complex with the Sec translocon and a translating ribosomeELECTRON MICROSCOPY3.51688
298P2K|1|A2Ternary complex of translating ribosome, NAC and METAP1ELECTRON MICROSCOPY2.91688
307JQB|1|ASARS-CoV-2 Nsp1 and rabbit 40S ribosome complexELECTRON MICROSCOPY2.71697
317JQC|1|ASARS-CoV-2 Nsp1, CrPV IRES and rabbit 40S ribosome complexELECTRON MICROSCOPY3.31697
327ZJX|1|S2Rabbit 80S ribosome programmed with SECIS and SBP2ELECTRON MICROSCOPY3.11689
336P4H|1|2Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 2)ELECTRON MICROSCOPY3.21697
346P4G|1|2Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 1)ELECTRON MICROSCOPY3.11697
356P5K|1|2Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)ELECTRON MICROSCOPY3.11697
366P5I|1|2Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1)ELECTRON MICROSCOPY3.11697
376P5J|1|2Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)ELECTRON MICROSCOPY3.11697
387OYD|1|9Cryo-EM structure of a rabbit 80S ribosome with zebrafish Dap1bELECTRON MICROSCOPY2.31664
396MTE|1|9Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)ELECTRON MICROSCOPY3.41664
406MTD|1|9Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel)ELECTRON MICROSCOPY3.31692
416W2S|1|AStructure 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
426W2T|1|aStructure 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
436D9J|1|2Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.ELECTRON MICROSCOPY3.21697
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