RNA 3D Hub //

Equivalence class NR_all_06650.3 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
13J71|1|5+ 3J71|1|8 (rep)28S ribosomal RNA, 5.8S ribosomal RNAStructure of the mammalian 60S ribosomal subunitElectron microscopy3.42014-06-18
23J72|1|5+ 3J72|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the idle mammalian ribosome-Sec61 complexElectron microscopy3.42014-06-18
35LZS|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
43J74|1|5+ 3J74|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the 80S mammalian ribosome bound to eEF2Electron microscopy3.52014-06-18
55LZV|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
65LZZ|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
75LZW|1|5+ 5LZW|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 assembled on a truncated mRNA.Electron microscopy3.532016-11-30
85LZX|1|5+ 5LZX|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 assembled on a UGA stop codon.Electron microscopy3.672016-11-30
95LZT|1|5+ 5LZT|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the mammalian ribosomal termination complex with eRF1 and eRF3.Electron microscopy3.652016-11-30
103J73|1|5+ 3J73|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the translating mammalian ribosome-Sec61 complexElectron microscopy3.92014-06-18
115LZU|1|5+ 5LZU|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 eRF1Electron microscopy3.752016-11-30
125LZY|1|5+ 5LZY|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 assembled on a polyadenylated mRNA.Electron microscopy3.992016-11-30
133JAH|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
146FTI|1|u+ 6FTI|1|wLarge subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Programmed 80S RibosomeElectron microscopy4.22018-03-21
153JAG|1|5+ 3JAG|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 UAA stop codonElectron microscopy3.652015-08-12
163JAI|1|5+ 3JAI|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 UGA stop codonElectron microscopy3.652015-08-12
173J92|1|5+ 3J92|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S rRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure and assembly pathway of the ribosome quality control complexElectron microscopy3.62015-01-21
186FTJ|1|u+ 6FTJ|1|wLarge subunit ribosomal RNA + 5.8S ribosomal RNA28S rRNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Cryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Non-programmed 80S RibosomeElectron microscopy4.72018-03-21
191VWW|1|5+ 1VWW|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the mammalian 60S ribosomal subunit. This entry contains the large subunit ribosomal RNA.Electron microscopy3.42014-06-18
201VWY|1|5+ 1VWY|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the idle mammalian ribosome-Sec61 complex. This entry contains the large subunit ribosomal RNA.Electron microscopy3.42014-06-18
211VX3|1|5+ 1VX3|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the 80S mammalian ribosome bound to eEF2. This entry contains the large subunit ribosomal RNA.Electron microscopy3.52014-06-18
221VX0|1|5+ 1VX0|1|828S ribosomal RNA, 5.8S ribosomal RNAStructure of the translating mammalian ribosome-Sec61 complex. This entry contains the large subunit ribosomal RNA.Electron microscopy3.92014-06-18
234UJE|1|A2+ 4UJE|1|A3Large subunit ribosomal RNA + 5.8S ribosomal RNA28S Ribosomal RNA, 5.8S Ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Regulation of the mammalian elongation cycle by 40S subunit rolling: a eukaryotic-specific ribosome rearrangementElectron microscopy6.92014-07-16
246FTG|1|u+ 6FTG|1|wLarge subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Subtomogram average of OST-containing ribosome-translocon complexes from canine rough microsomal membranesElectron microscopy9.12018-03-21
253JAN|1|5+ 3JAN|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the scanning state of the mammalian SRP-ribosome complexElectron microscopy3.752015-08-05
263JAJ|1|5+ 3JAJ|1|8Large subunit ribosomal RNA + 5.8S ribosomal RNA28S ribosomal RNA, 5.8S ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Structure of the engaged state of the mammalian SRP-ribosome complexElectron microscopy3.752015-08-05
274UJD|1|A2+ 4UJD|1|A3Large subunit ribosomal RNA + 5.8S ribosomal RNA28S Ribosomal RNA, 5.8S Ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002mammalian 80S HCV-IRES initiation complex with eIF5B PRE-like stateElectron microscopy8.92014-07-30
284D67|1|2+ 4D67|1|3Large subunit ribosomal RNA + 5.8S ribosomal RNA28S RRNA, 5.8S RRNAOryctolagus cuniculusEukaryaRF02543 + RF00002Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated stateElectron microscopy92015-03-04
294D5Y|1|2+ 4D5Y|1|3Large subunit ribosomal RNA + 5.8S ribosomal RNA28S Ribosomal RNA, 5.8S Ribosomal RNAOryctolagus cuniculusEukaryaRF02543 + RF00002Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated stateElectron microscopy92015-03-04
304UJC|1|A2+ 4UJC|1|A3Large subunit ribosomal RNA + 5.8S ribosomal RNA28S RIBOSOMAL RNA, 5.8S RIBOSOMAL RNAOryctolagus cuniculusEukaryaRF02543 + RF00002mammalian 80S HCV-IRES initiation complex with eIF5B POST-like stateElectron microscopy9.52014-07-30

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
13J73|1|5+ 3J73|1|8Structure of the translating mammalian ribosome-Sec61 complexELECTRON MICROSCOPY3.93720
21VX0|1|5+ 1VX0|1|8Structure of the translating mammalian ribosome-Sec61 complex. This entry contains the large subunit ribosomal RNA.ELECTRON MICROSCOPY3.93720
31VWY|1|5+ 1VWY|1|8Structure of the idle mammalian ribosome-Sec61 complex. This entry contains the large subunit ribosomal RNA.ELECTRON MICROSCOPY3.43662
43J72|1|5+ 3J72|1|8Structure of the idle mammalian ribosome-Sec61 complexELECTRON MICROSCOPY3.43662
51VWW|1|5+ 1VWW|1|8Structure of the mammalian 60S ribosomal subunit. This entry contains the large subunit ribosomal RNA.ELECTRON MICROSCOPY3.43662
63J71|1|5+ 3J71|1|8Structure of the mammalian 60S ribosomal subunitELECTRON MICROSCOPY3.43662
71VX3|1|5+ 1VX3|1|8Structure of the 80S mammalian ribosome bound to eEF2. This entry contains the large subunit ribosomal RNA.ELECTRON MICROSCOPY3.53662
83J74|1|5+ 3J74|1|8Structure of the 80S mammalian ribosome bound to eEF2ELECTRON MICROSCOPY3.53662
93J92|1|5+ 3J92|1|8Structure and assembly pathway of the ribosome quality control complexELECTRON MICROSCOPY3.63662
103JAJ|1|5+ 3JAJ|1|8Structure of the engaged state of the mammalian SRP-ribosome complexELECTRON MICROSCOPY3.753658
113JAN|1|5+ 3JAN|1|8Structure of the scanning state of the mammalian SRP-ribosome complexELECTRON MICROSCOPY3.753658
123JAI|1|5+ 3JAI|1|8Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UGA stop codonELECTRON MICROSCOPY3.653662
133JAG|1|5+ 3JAG|1|8Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAA stop codonELECTRON MICROSCOPY3.653662
143JAH|1|5+ 3JAH|1|8Structure of a mammalian ribosomal termination complex with ABCE1, eRF1(AAQ), and the UAG stop codonELECTRON MICROSCOPY3.453662
156FTG|1|u+ 6FTG|1|wSubtomogram average of OST-containing ribosome-translocon complexes from canine rough microsomal membranesELECTRON MICROSCOPY9.13662
166FTI|1|u+ 6FTI|1|wCryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Programmed 80S RibosomeELECTRON MICROSCOPY4.23662
176FTJ|1|u+ 6FTJ|1|wCryo-EM Structure of the Mammalian Oligosaccharyltransferase Bound to Sec61 and the Non-programmed 80S RibosomeELECTRON MICROSCOPY4.73662
185LZV|1|5+ 5LZV|1|8Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1.ELECTRON MICROSCOPY3.353543
195LZU|1|5+ 5LZU|1|8Structure of the mammalian ribosomal termination complex with accommodated eRF1ELECTRON MICROSCOPY3.753543
205LZS|1|5+ 5LZS|1|8Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin BELECTRON MICROSCOPY3.313543
215LZT|1|5+ 5LZT|1|8Structure of the mammalian ribosomal termination complex with eRF1 and eRF3.ELECTRON MICROSCOPY3.653543
225LZW|1|5+ 5LZW|1|8Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a truncated mRNA.ELECTRON MICROSCOPY3.533543
235LZX|1|5+ 5LZX|1|8Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a UGA stop codon.ELECTRON MICROSCOPY3.673543
245LZZ|1|5+ 5LZZ|1|8Structure of the mammalian rescue complex with Pelota and Hbs1l (combined)ELECTRON MICROSCOPY3.473543
255LZY|1|5+ 5LZY|1|8Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a polyadenylated mRNA.ELECTRON MICROSCOPY3.993543
264UJC|1|A2+ 4UJC|1|A3mammalian 80S HCV-IRES initiation complex with eIF5B POST-like stateELECTRON MICROSCOPY9.53616
274UJE|1|A2+ 4UJE|1|A3Regulation of the mammalian elongation cycle by 40S subunit rolling: a eukaryotic-specific ribosome rearrangementELECTRON MICROSCOPY6.93616
284UJD|1|A2+ 4UJD|1|A3mammalian 80S HCV-IRES initiation complex with eIF5B PRE-like stateELECTRON MICROSCOPY8.93616
294D5Y|1|2+ 4D5Y|1|3Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated stateELECTRON MICROSCOPY93616
304D67|1|2+ 4D67|1|3Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated stateELECTRON MICROSCOPY93616

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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