RNA 3D Hub //

Equivalence class NR_3.0_46995.36 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
18GLP|1|S2 (rep)Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure)Electron microscopy1.6716722023-04-19
27R4X|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM reconstruction of the human 40S ribosomal subunit - Full mapElectron microscopy2.1516462023-02-22
38IFE|1|2mSmall subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Arbekacin-added human 80S ribosomeElectron microscopy2.5717422024-02-14
48IFD|1|2mSmall subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Dibekacin-added human 80S ribosomeElectron microscopy2.5917422024-02-14
58G5Y|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)Electron microscopy2.2916802023-04-19
66ZMI|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complexElectron microscopy2.617402020-08-19
77XNY|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cellsElectron microscopy2.517402023-04-05
88JDK|1|wSmall subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)Electron microscopy2.2616342023-12-06
96ZM7|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complexElectron microscopy2.717402020-07-29
108T4S|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960MERS-CoV Nsp1 protein bound to the Human 40S Ribosomal subunitElectron microscopy2.616712023-10-04
118PPL|1|A2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960MERS-CoV Nsp1 bound to the human 43S pre-initiation complexElectron microscopy2.6517802023-10-18
126ZLW|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human 40S ribosomal subunitElectron microscopy2.616652020-07-29
137XNX|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cellsElectron microscopy2.717402023-04-05
148JDL|1|wSmall subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (non-rotated state)Electron microscopy2.4216342023-12-06
158JDJ|1|wSmall subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU)Electron microscopy2.516342023-12-06
166ZVH|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960EDF1-ribosome complexElectron microscopy2.917402020-08-19
176Z6N|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1)Electron microscopy2.917402020-07-29
188G5Z|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)Electron microscopy2.6417012023-04-19
198G60|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state)Electron microscopy2.5416542023-04-19
206ZOJ|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, composite mapElectron microscopy2.817042020-07-22
216ZP4|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2Electron microscopy2.917212020-07-29
226ZXG|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1Electron microscopy2.616512020-12-02
236ZME|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complexElectron microscopy317402020-08-12
246Z6L|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human CCDC124 bound to 80S ribosomesElectron microscopy317402020-07-29
256QZP|1|S2Small subunit ribosomal RNA18S rRNA (1740-MER)Homo sapiensEukaryaRF01960High-resolution cryo-EM structure of the human 80S ribosomeElectron microscopy2.917402019-04-24
266ZV6|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)Electron microscopy2.916832021-05-12
276ZON|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 1Electron microscopy317212020-07-29
288XXL|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of the human 40S ribosome with PDCD4Electron microscopy2.917232024-05-01
296ZXH|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2Electron microscopy2.716512020-12-16
307QVP|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human collided disome (di-ribosome) stalled on XBP1 mRNAElectron microscopy317142022-10-12
317K5I|1|2Small subunit ribosomal RNA40S ribosomal rRNA18SHomo sapiensEukaryaRF01960SARS-COV-2 nsp1 in complex with human 40S ribosomeElectron microscopy2.916652020-10-14
328G6J|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2)Electron microscopy2.817012023-04-19
338JDM|1|wSmall subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state)Electron microscopy2.6716342023-12-06
347QVP|1|S3Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human collided disome (di-ribosome) stalled on XBP1 mRNAElectron microscopy317052022-10-12
358PPK|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Bat-Hp-CoV Nsp1 and eIF1 bound to the human 40S small ribosomal subunitElectron microscopy2.9817712023-10-18
367MQA|1|L1Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of the human SSU processome, state post-A1Electron microscopy2.715702021-09-22
376ZXE|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2Electron microscopy316452020-12-02
386Y2L|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of human ribosome in POST stateElectron microscopy317132020-04-15
398G61|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)Electron microscopy2.9416822023-04-19
406XA1|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Structure of a drug-like compound stalled human translation termination complexElectron microscopy2.815902020-10-07
417WTZ|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2Electron microscopy316242022-10-19
427WTU|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1)Electron microscopy315752022-10-19
436ZMT|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complexElectron microscopy315692020-08-19
446ZOK|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, focused on bodyElectron microscopy2.812322020-07-29
456ZOL|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, focused on headElectron microscopy2.84722020-07-22

Release history

Release3.3333.3343.3353.3363.3373.338
Date2024-05-012024-05-082024-05-152024-05-222024-05-292024-06-05

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child

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.

#SViewPDBTitleMethodResolution#NTs
17WTU|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1)ELECTRON MICROSCOPY31575
27WTZ|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2ELECTRON MICROSCOPY31624
36ZOK|1|2SARS-CoV-2-Nsp1-40S complex, focused on bodyELECTRON MICROSCOPY2.81232
46ZOJ|1|2SARS-CoV-2-Nsp1-40S complex, composite mapELECTRON MICROSCOPY2.81704
57K5I|1|2SARS-COV-2 nsp1 in complex with human 40S ribosomeELECTRON MICROSCOPY2.91665
68PPK|1|2Bat-Hp-CoV Nsp1 and eIF1 bound to the human 40S small ribosomal subunitELECTRON MICROSCOPY2.981771
76ZLW|1|2SARS-CoV-2 Nsp1 bound to the human 40S ribosomal subunitELECTRON MICROSCOPY2.61665
88T4S|1|2MERS-CoV Nsp1 protein bound to the Human 40S Ribosomal subunitELECTRON MICROSCOPY2.61671
96ZON|1|2SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 1ELECTRON MICROSCOPY31721
108XXL|1|S2Cryo-EM structure of the human 40S ribosome with PDCD4ELECTRON MICROSCOPY2.91723
117R4X|1|2Cryo-EM reconstruction of the human 40S ribosomal subunit - Full mapELECTRON MICROSCOPY2.151646
126ZV6|1|2Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)ELECTRON MICROSCOPY2.91683
136ZXH|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2ELECTRON MICROSCOPY2.71651
146ZXG|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1ELECTRON MICROSCOPY2.61651
157QVP|1|S3Human collided disome (di-ribosome) stalled on XBP1 mRNAELECTRON MICROSCOPY31705
168JDM|1|wStructure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state)ELECTRON MICROSCOPY2.671634
178JDK|1|wStructure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)ELECTRON MICROSCOPY2.261634
188JDJ|1|wStructure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU)ELECTRON MICROSCOPY2.51634
198JDL|1|wStructure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (non-rotated state)ELECTRON MICROSCOPY2.421634
206ZVH|1|2EDF1-ribosome complexELECTRON MICROSCOPY2.91740
216ZME|1|S2SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complexELECTRON MICROSCOPY31740
226ZM7|1|S2SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complexELECTRON MICROSCOPY2.71740
236ZMI|1|S2SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complexELECTRON MICROSCOPY2.61740
246Z6L|1|S2Cryo-EM structure of human CCDC124 bound to 80S ribosomesELECTRON MICROSCOPY31740
256Z6N|1|S2Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1)ELECTRON MICROSCOPY2.91740
267XNY|1|S2High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cellsELECTRON MICROSCOPY2.51740
277XNX|1|S2High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cellsELECTRON MICROSCOPY2.71740
286QZP|1|S2High-resolution cryo-EM structure of the human 80S ribosomeELECTRON MICROSCOPY2.91740
296XA1|1|S2Structure of a drug-like compound stalled human translation termination complexELECTRON MICROSCOPY2.81590
306Y2L|1|S2Structure of human ribosome in POST stateELECTRON MICROSCOPY31713
317QVP|1|S2Human collided disome (di-ribosome) stalled on XBP1 mRNAELECTRON MICROSCOPY31714
328G60|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state)ELECTRON MICROSCOPY2.541654
338G5Y|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)ELECTRON MICROSCOPY2.291680
348GLP|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure)ELECTRON MICROSCOPY1.671672
358G5Z|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)ELECTRON MICROSCOPY2.641701
368G6J|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2)ELECTRON MICROSCOPY2.81701
378G61|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)ELECTRON MICROSCOPY2.941682
388IFD|1|2mDibekacin-added human 80S ribosomeELECTRON MICROSCOPY2.591742
398IFE|1|2mArbekacin-added human 80S ribosomeELECTRON MICROSCOPY2.571742
408PPL|1|A2MERS-CoV Nsp1 bound to the human 43S pre-initiation complexELECTRON MICROSCOPY2.651780
416ZMT|1|2SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complexELECTRON MICROSCOPY31569
426ZP4|1|2SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2ELECTRON MICROSCOPY2.91721
436ZOL|1|2SARS-CoV-2-Nsp1-40S complex, focused on headELECTRON MICROSCOPY2.8472
446ZXE|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2ELECTRON MICROSCOPY31645
457MQA|1|L1Cryo-EM structure of the human SSU processome, state post-A1ELECTRON MICROSCOPY2.71570

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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