RNA 3D Hub //

Equivalence class NR_20.0_10266.1 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
28K82|1|C5Transfer RNAtRNASaccharomyces cerevisiaeEukaryaRF00005Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNAElectron microscopy32024-07-10
37B7D|1|SmTransfer RNAmRNA, tRNASaccharomyces cerevisiae S288CEukaryaRF00005Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsElectron microscopy3.32021-03-10
47B7D|1|SnTransfer RNAmRNA, tRNASaccharomyces cerevisiae S288CEukaryaRF00005Yeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsElectron microscopy3.32021-03-10
56TNU|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
66FYY|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
78CAS|1|1Transfer RNAmRNA, tRNASaccharomyces cerevisiae W303EukaryaRF00005Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial)Electron microscopy3.32023-05-24
88RW1|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformationElectron microscopy3.352024-09-11
98S8D|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
106FYX|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
117NRC|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
121YFG|1|ATransfer RNAYEAST INITIATOR TRNASaccharomyces cerevisiaeEukaryaRF00005YEAST INITIATOR TRNAX-ray diffraction31997-09-03
138S8E|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
148S8F|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
158S8G|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
168S8H|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
177NRD|1|SnTransfer RNAtRNA (75-MER)Saccharomyces cerevisiae S288CEukaryaRF00005Structure of the yeast Gcn1 bound to a colliding stalled 80S ribosome with MBF1, A/P-tRNA and P/E-tRNAElectron microscopy4.362021-04-14
185OA3|1|1Transfer RNAinitiator Met-tRNA-iSaccharomyces cerevisiaeEukaryaRF00005Human 40S-eIF2D-re-initiation complexElectron microscopy4.22017-08-09
198S8I|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF1)Electron microscopy4.32024-09-11
203J81|1|1Met-tRNAi, mRNACryoEM structure of a partial yeast 48S preinitiation complexElectron microscopy42014-11-05
218S8J|1|1Transfer RNAMet-tRNAiSaccharomyces cerevisiae S288CEukaryaRF00005Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF5)Electron microscopy4.72024-09-11
226GSM|1|1Transfer RNAMet-tRNAi, mRNA (5'-R(P*AP*AP*U)-3')Saccharomyces cerevisiaeEukaryaRF00005Structure of a partial yeast 48S preinitiation complex in open conformationElectron microscopy5.152019-07-31
236GSN|1|1Transfer RNAmRNA, tRNAi (75-MER)Saccharomyces cerevisiaeEukaryaRF00005Structure of a partial yeast 48S preinitiation complex in closed conformationElectron microscopy5.752019-06-26
246ZU9|1|1Transfer RNAmRNA, tRNASaccharomyces cerevisiaeEukaryaRF00005Structure of a yeast ABCE1-bound 48S initiation complexElectron microscopy6.22020-10-28

Release history

Release3.3523.3533.3543.3553.3563.3573.3583.359
Date2024-09-112024-09-182024-09-252024-10-022024-10-092024-10-162024-10-232024-10-30

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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
13J81|1|1CryoEM structure of a partial yeast 48S preinitiation complexELECTRON MICROSCOPY474
26GSN|1|1Structure of a partial yeast 48S preinitiation complex in closed conformationELECTRON MICROSCOPY5.7575
36FYY|1|1Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2)ELECTRON MICROSCOPY3.0264
46ZU9|1|1Structure of a yeast ABCE1-bound 48S initiation complexELECTRON MICROSCOPY6.264
56FYX|1|1Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)ELECTRON MICROSCOPY3.564
68CAS|1|1Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial)ELECTRON MICROSCOPY3.364
78S8F|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.2)ELECTRON MICROSCOPY3.9575
88S8J|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF5)ELECTRON MICROSCOPY4.775
98S8G|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.1)ELECTRON MICROSCOPY475
108S8I|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-eIF1)ELECTRON MICROSCOPY4.375
118S8E|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.1)ELECTRON MICROSCOPY3.8575
128S8D|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2)ELECTRON MICROSCOPY3.4575
138RW1|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformationELECTRON MICROSCOPY3.3575
148S8H|1|1Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.2)ELECTRON MICROSCOPY475
156GSM|1|1Structure of a partial yeast 48S preinitiation complex in open conformationELECTRON MICROSCOPY5.1564
161YFG|1|AYEAST INITIATOR TRNAX-RAY DIFFRACTION364
177NRD|1|SnStructure of the yeast Gcn1 bound to a colliding stalled 80S ribosome with MBF1, A/P-tRNA and P/E-tRNAELECTRON MICROSCOPY4.3675
187NRC|1|SnStructure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5AELECTRON MICROSCOPY3.975
196TNU|1|nYeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs.ELECTRON MICROSCOPY3.168
208K82|1|C5Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNAELECTRON MICROSCOPY366
216TB3|1|nyeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complexELECTRON MICROSCOPY2.866
227B7D|1|SnYeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsELECTRON MICROSCOPY3.375
237B7D|1|SmYeast 80S ribosome bound to eEF3 and A/A- and P/P-tRNAsELECTRON MICROSCOPY3.375
245OA3|1|1Human 40S-eIF2D-re-initiation complexELECTRON MICROSCOPY4.275

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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