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Equivalence class NR_3.5_06650.24 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
17O7Y|1|B5+ 7O7Y|1|B8 (rep)Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)Electron microscopy2.22021-06-02
27O7Z|1|B5+ 7O7Z|1|B8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)Electron microscopy2.42021-06-02
37O80|1|B5+ 7O80|1|B8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 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
47OBR|1|5+ 7OBR|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002RNC-SRP early complexElectron microscopy2.82021-07-21
56SGC|1|54+ 6SGC|1|84Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome stalled on a poly(A) tailElectron microscopy2.82019-12-04
67QWQ|1|5+ 7QWQ|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Ternary complex of ribosome nascent chain with SRP and NACElectron microscopy2.832022-03-16
77UCK|1|5+ 7UCK|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28s rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF0000280S translation initiation complex with ac4c(-1) mRNA and HarringtonineElectron microscopy2.82022-06-01
87TOR|1|A28S+ 7TOR|1|A58SLarge subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20Electron microscopy2.92022-05-25
97QWR|1|5+ 7QWR|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the ribosome-nascent chain containing an ER signal sequence in complex with NACElectron microscopy2.92022-03-09
107TOQ|1|A25S+ 7TOQ|1|A58SLarge subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein poly-PRElectron microscopy3.12022-05-25
117O81|1|B5+ 7O81|1|B8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknotElectron microscopy3.12021-06-02
127NWI|1|5+ 7NWI|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA+BlaS, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin SElectron microscopy3.132021-07-07
136R5Q|1|5+ 6R5Q|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of XBP1u-paused ribosome nascent chain complex (post-state)Electron microscopy32019-07-10
146R6P|1|5+ 6R6P|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of XBP1u-paused ribosome nascent chain complex (rotated state)Electron microscopy3.12019-07-10
156P5I|1|5+ 6P5I|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1)Electron microscopy3.12019-09-18
166P5J|1|5+ 6P5J|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)Electron microscopy3.12019-09-18
176P5K|1|5+ 6P5K|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)Electron microscopy3.12019-09-18
186ZVK|1|e2+ 6ZVK|1|h2Large subunit ribosomal RNA + 5.8S ribosomal RNA28S RIBOSOMAL RNA, 5.8S RIBOSOMAL RNAOryctolagus cuniculusEukaryaRF02543 + RF00002The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanismElectron microscopy3.492020-12-23
196P5N|1|5+ 6P5N|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1Electron microscopy3.22019-09-25
207MDZ|1|5+ 7MDZ|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF0000280S rabbit ribosome stalled with benzamide-CHXElectron microscopy3.22021-09-01
217UCJ|1|5+ 7UCJ|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28s rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian 80S translation initiation complex with mRNA and HarringtonineElectron microscopy3.12022-06-01
226D9J|1|5+ 6D9J|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.Electron microscopy3.22018-06-06
237NFX|1|5+ 7NFX|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian ribosome nascent chain complex with SRP and SRP receptor in early state AElectron microscopy3.22021-06-02
246T59|1|54+ 6T59|1|84Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complexElectron microscopy3.112019-11-27
255LZS|1|5+ 5LZS|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin BElectron microscopy3.312016-11-30
265LZV|1|5+ 5LZV|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1.Electron microscopy3.352016-11-30
276MTD|1|5+ 6MTD|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel)Electron microscopy3.32018-11-21
287QWS|1|5+ 7QWS|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of ribosome translating beta-tubulin in complex with TTC5 and NACElectron microscopy3.42022-03-09
296D90|1|5+ 6D90|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1.Electron microscopy3.22018-06-06
306MTE|1|5+ 6MTE|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)Electron microscopy3.42018-11-21
316MTC|1|5+ 6MTC|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state)Electron microscopy3.42018-11-21
326GZ5|1|A2+ 6GZ5|1|A3Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)Electron microscopy3.52018-12-05
335LZZ|1|5+ 5LZZ|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)Electron microscopy3.472016-11-30
343JAH|1|5+ 3JAH|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codonElectron microscopy3.452015-08-12

Release history

Release3.2333.2343.2353.2363.2373.2383.239
Date2022-06-012022-06-082022-06-152022-06-222022-06-292022-07-062022-07-13

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_3.5_06650.24NR_3.5_06650.233.233(32) 3JAH|1|5+3JAH|1|8, 5LZS|1|5+5LZS|1|8, 5LZV|1|5+5LZV|1|8, 5LZZ|1|5+5LZZ|1|8, 6D90|1|5+6D90|1|8, 6D9J|1|5+6D9J|1|8, 6GZ5|1|A2+6GZ5|1|A3, 6MTC|1|5+6MTC|1|8, 6MTD|1|5+6MTD|1|8, 6MTE|1|5+6MTE|1|8, 6P5I|1|5+6P5I|1|8, 6P5J|1|5+6P5J|1|8, 6P5K|1|5+6P5K|1|8, 6P5N|1|5+6P5N|1|8, 6R5Q|1|5+6R5Q|1|8, 6R6P|1|5+6R6P|1|8, 6SGC|1|54+6SGC|1|84, 6T59|1|54+6T59|1|84, 6ZVK|1|e2+6ZVK|1|h2, 7MDZ|1|5+7MDZ|1|8, 7NFX|1|5+7NFX|1|8, 7NWI|1|5+7NWI|1|8, 7O7Y|1|B5+7O7Y|1|B8, 7O7Z|1|B5+7O7Z|1|B8, 7O80|1|B5+7O80|1|B8, 7O81|1|B5+7O81|1|B8, 7OBR|1|5+7OBR|1|8, 7QWQ|1|5+7QWQ|1|8, 7QWR|1|5+7QWR|1|8, 7QWS|1|5+7QWS|1|8, 7TOQ|1|A25S+7TOQ|1|A58S, 7TOR|1|A28S+7TOR|1|A58S(2) 7UCJ|1|5+7UCJ|1|8, 7UCK|1|5+7UCK|1|8(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_3.5_06650.24NR_3.5_06650.253.240(34) 3JAH|1|5+3JAH|1|8, 5LZS|1|5+5LZS|1|8, 5LZV|1|5+5LZV|1|8, 5LZZ|1|5+5LZZ|1|8, 6D90|1|5+6D90|1|8, 6D9J|1|5+6D9J|1|8, 6GZ5|1|A2+6GZ5|1|A3, 6MTC|1|5+6MTC|1|8, 6MTD|1|5+6MTD|1|8, 6MTE|1|5+6MTE|1|8, 6P5I|1|5+6P5I|1|8, 6P5J|1|5+6P5J|1|8, 6P5K|1|5+6P5K|1|8, 6P5N|1|5+6P5N|1|8, 6R5Q|1|5+6R5Q|1|8, 6R6P|1|5+6R6P|1|8, 6SGC|1|54+6SGC|1|84, 6T59|1|54+6T59|1|84, 6ZVK|1|e2+6ZVK|1|h2, 7MDZ|1|5+7MDZ|1|8, 7NFX|1|5+7NFX|1|8, 7NWI|1|5+7NWI|1|8, 7O7Y|1|B5+7O7Y|1|B8, 7O7Z|1|B5+7O7Z|1|B8, 7O80|1|B5+7O80|1|B8, 7O81|1|B5+7O81|1|B8, 7OBR|1|5+7OBR|1|8, 7QWQ|1|5+7QWQ|1|8, 7QWR|1|5+7QWR|1|8, 7QWS|1|5+7QWS|1|8, 7TOQ|1|A25S+7TOQ|1|A58S, 7TOR|1|A28S+7TOR|1|A58S, 7UCJ|1|5+7UCJ|1|8, 7UCK|1|5+7UCK|1|8(0) (1) 7OYD|1|5+7OYD|1|8

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.

#SViewPDBTitleMethodResolutionLength
16D9J|1|5+ 6D9J|1|8Mammalian 80S ribosome with a double translocated CrPV-IRES, P-sitetRNA and eRF1.ELECTRON MICROSCOPY3.23594
26D90|1|5+ 6D90|1|8Mammalian 80S ribosome with a double translocated CrPV-IRES, P-site tRNA and eRF1.ELECTRON MICROSCOPY3.23594
36P5N|1|5+ 6P5N|1|8Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1ELECTRON MICROSCOPY3.23594
47UCJ|1|5+ 7UCJ|1|8Mammalian 80S translation initiation complex with mRNA and HarringtonineELECTRON MICROSCOPY3.13399
57UCK|1|5+ 7UCK|1|880S translation initiation complex with ac4c(-1) mRNA and HarringtonineELECTRON MICROSCOPY2.83446
66MTC|1|5+ 6MTC|1|8Rabbit 80S ribosome with Z-site tRNA and IFRD2 (unrotated state)ELECTRON MICROSCOPY3.43497
76MTD|1|5+ 6MTD|1|8Rabbit 80S ribosome with eEF2 and SERBP1 (unrotated state with 40S head swivel)ELECTRON MICROSCOPY3.33497
86MTE|1|5+ 6MTE|1|8Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state)ELECTRON MICROSCOPY3.43497
96T59|1|54+ 6T59|1|84Structure of rabbit 80S ribosome translating beta-tubulin in complex with tetratricopeptide protein 5 and nascent chain-associated complexELECTRON MICROSCOPY3.113543
106R5Q|1|5+ 6R5Q|1|8Structure of XBP1u-paused ribosome nascent chain complex (post-state)ELECTRON MICROSCOPY33543
115LZV|1|5+ 5LZV|1|8Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1.ELECTRON MICROSCOPY3.353543
125LZS|1|5+ 5LZS|1|8Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin BELECTRON MICROSCOPY3.313543
136P5J|1|5+ 6P5J|1|8Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)ELECTRON MICROSCOPY3.13594
146P5I|1|5+ 6P5I|1|8Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1)ELECTRON MICROSCOPY3.13594
156P5K|1|5+ 6P5K|1|8Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)ELECTRON MICROSCOPY3.13594
165LZZ|1|5+ 5LZZ|1|8Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)ELECTRON MICROSCOPY3.473543
176SGC|1|54+ 6SGC|1|84Rabbit 80S ribosome stalled on a poly(A) tailELECTRON MICROSCOPY2.83603
187MDZ|1|5+ 7MDZ|1|880S rabbit ribosome stalled with benzamide-CHXELECTRON MICROSCOPY3.23541
197TOQ|1|A25S+ 7TOQ|1|A58SMammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein poly-PRELECTRON MICROSCOPY3.13649
207O81|1|B5+ 7O81|1|B8Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknotELECTRON MICROSCOPY3.13640
217TOR|1|A28S+ 7TOR|1|A58SMammalian 80S ribosome bound with the ALS/FTD-associated dipeptide repeat protein GR20ELECTRON MICROSCOPY2.93552
227O7Y|1|B5+ 7O7Y|1|B8Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)ELECTRON MICROSCOPY2.23640
237O7Z|1|B5+ 7O7Z|1|B8Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)ELECTRON MICROSCOPY2.43640
247O80|1|B5+ 7O80|1|B8Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery siteELECTRON MICROSCOPY2.93640
256GZ5|1|A2+ 6GZ5|1|A3tRNA translocation by the eukaryotic 80S ribosome and the impact of GTP hydrolysis, Translocation-intermediate-POST-3 (TI-POST-3)ELECTRON MICROSCOPY3.53612
266R6P|1|5+ 6R6P|1|8Structure of XBP1u-paused ribosome nascent chain complex (rotated state)ELECTRON MICROSCOPY3.13662
273JAH|1|5+ 3JAH|1|8Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codonELECTRON MICROSCOPY3.453662
287NFX|1|5+ 7NFX|1|8Mammalian ribosome nascent chain complex with SRP and SRP receptor in early state AELECTRON MICROSCOPY3.23493
297OBR|1|5+ 7OBR|1|8RNC-SRP early complexELECTRON MICROSCOPY2.83493
307QWQ|1|5+ 7QWQ|1|8Ternary complex of ribosome nascent chain with SRP and NACELECTRON MICROSCOPY2.833493
317QWR|1|5+ 7QWR|1|8Structure of the ribosome-nascent chain containing an ER signal sequence in complex with NACELECTRON MICROSCOPY2.93493
327QWS|1|5+ 7QWS|1|8Structure of ribosome translating beta-tubulin in complex with TTC5 and NACELECTRON MICROSCOPY3.43493
336ZVK|1|e2+ 6ZVK|1|h2The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanismELECTRON MICROSCOPY3.493920
347NWI|1|5+ 7NWI|1|8Mammalian pre-termination 80S ribosome with Empty-A site bound by Blasticidin SELECTRON MICROSCOPY3.133662

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.


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