RNA 3D Hub //

Equivalence class NR_4.0_10266.2 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
16TB3|1|n (rep)Transfer RNAmRNA, tRNASaccharomyces cerevisiaeEukaryaRF00005yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complexElectron microscopy2.82020-04-22
28UTI|1|nTransfer RNAP site initiator tRNASaccharomyces cerevisiaeEukaryaRF00005Eukaryotic 80S ribosome with Reh1 and A/P site tRNAElectron microscopy3.132024-11-06
38UT0|1|nTransfer RNAP site initiator tRNASaccharomyces cerevisiaeEukaryaRF00005Eukaryotic 80S ribosome with Reh1, eIF5A and A/P site tRNAElectron microscopy3.222024-11-06
48K82|1|C5Transfer RNAtRNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNAElectron microscopy32024-07-10
57B7D|1|SmTransfer RNAmRNA, tRNASaccharomyces cerevisiae S288CEukaryaRF00005Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsElectron microscopy3.32021-03-10
67B7D|1|SnTransfer RNAmRNA, tRNASaccharomyces cerevisiae S288CEukaryaRF00005Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsElectron microscopy3.32021-03-10
76TNU|1|nTransfer RNAmRNA, P-site tRNASaccharomyces cerevisiaeEukaryaRF00005Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs.Electron microscopy3.12020-04-22
86FYY|1|1Transfer RNAmRNA (31-MER), tRNAiSaccharomyces cerevisiaeEukaryaRF00005Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2)Electron microscopy3.022018-12-05
98CAS|1|1Transfer RNAmRNA, tRNASaccharomyces cerevisiae W303EukaryaRF00005Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial)Electron microscopy3.32023-05-24
108RW1|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformationElectron microscopy3.352024-09-11
118S8D|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2)Electron microscopy3.452024-09-11
126FYX|1|1Transfer RNAmRNA (31-MER), tRNAiSaccharomyces cerevisiaeEukaryaRF00005Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)Electron microscopy3.52018-12-05
137NRC|1|SnTransfer RNARNA (5'-R(P*AP*UP*GP*AP*AP*A)-3'), tRNA (75-MER)Saccharomyces cerevisiae S288CEukaryaRF00005Structure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5AElectron microscopy3.92021-05-05
141YFG|1|ATransfer RNAYEAST INITIATOR TRNASaccharomyces cerevisiaeEukaryaRF00005YEAST INITIATOR TRNAX-ray diffraction31997-09-03
158S8E|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.1)Electron microscopy3.852024-09-11
168S8F|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.2)Electron microscopy3.952024-09-11
178S8K|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in swivelled conformation (model py48S-AUC-swiv-eIF1)Electron microscopy42024-11-06
188S8G|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.1)Electron microscopy42024-09-11
198S8H|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.2)Electron microscopy42024-09-11
203J81|1|1Met-tRNAi, mRNACryoEM structure of a partial yeast 48S preinitiation complexElectron microscopy42014-11-05

Release history

Release3.3603.3613.3623.3633.364
Date2024-11-062024-11-132024-11-202024-11-272024-12-04

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

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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
17B7D|1|SmYeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsELECTRON MICROSCOPY3.375
27B7D|1|SnYeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsELECTRON MICROSCOPY3.375
37NRC|1|SnStructure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5AELECTRON MICROSCOPY3.975
46TNU|1|nYeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs.ELECTRON MICROSCOPY3.168
58UT0|1|nEukaryotic 80S ribosome with Reh1, eIF5A and A/P site tRNAELECTRON MICROSCOPY3.2275
68UTI|1|nEukaryotic 80S ribosome with Reh1 and A/P site tRNAELECTRON MICROSCOPY3.1375
76TB3|1|nyeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complexELECTRON MICROSCOPY2.866
88K82|1|C5Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNAELECTRON MICROSCOPY366
91YFG|1|AYEAST INITIATOR TRNAX-RAY DIFFRACTION364
108S8H|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.2)ELECTRON MICROSCOPY475
118S8K|1|1Structure of a yeast 48S-AUC preinitiation complex in swivelled conformation (model py48S-AUC-swiv-eIF1)ELECTRON MICROSCOPY475
128RW1|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformationELECTRON MICROSCOPY3.3575
138S8D|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2)ELECTRON MICROSCOPY3.4575
148S8E|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.1)ELECTRON MICROSCOPY3.8575
158S8G|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.1)ELECTRON MICROSCOPY475
168S8F|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.2)ELECTRON MICROSCOPY3.9575
176FYY|1|1Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2)ELECTRON MICROSCOPY3.0264
186FYX|1|1Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)ELECTRON MICROSCOPY3.564
198CAS|1|1Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial)ELECTRON MICROSCOPY3.364
203J81|1|1CryoEM structure of a partial yeast 48S preinitiation complexELECTRON MICROSCOPY474

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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