RNA 3D Hub //

Equivalence class NR_3.0_46995.30 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
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 microscopy1.672023-04-19
27R4X|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM reconstruction of the human 40S ribosomal subunit - Full mapElectron microscopy2.152023-02-22
38G5Y|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)Electron microscopy2.292023-04-19
46ZMI|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complexElectron microscopy2.62020-08-19
57XNY|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cellsElectron microscopy2.52023-04-05
66ZM7|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complexElectron microscopy2.72020-07-29
76ZLW|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human 40S ribosomal subunitElectron microscopy2.62020-07-29
87XNX|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cellsElectron microscopy2.72023-04-05
96ZVH|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960EDF1-ribosome complexElectron microscopy2.92020-08-19
106Z6N|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1)Electron microscopy2.92020-07-29
118G5Z|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)Electron microscopy2.642023-04-19
128G60|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state)Electron microscopy2.542023-04-19
136ZOJ|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, composite mapElectron microscopy2.82020-07-22
146ZP4|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2Electron microscopy2.92020-07-29
156ZXG|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1Electron microscopy2.62020-12-02
166ZME|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complexElectron microscopy32020-08-12
176Z6L|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human CCDC124 bound to 80S ribosomesElectron microscopy32020-07-29
186QZP|1|S2Small subunit ribosomal RNA18S rRNA (1740-MER)Homo sapiensEukaryaRF01960High-resolution cryo-EM structure of the human 80S ribosomeElectron microscopy2.92019-04-24
196ZV6|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)Electron microscopy2.92021-05-12
206ZON|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 1Electron microscopy32020-07-29
216ZXH|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2Electron microscopy2.72020-12-16
227QVP|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human collided disome (di-ribosome) stalled on XBP1 mRNAElectron microscopy32022-10-12
237K5I|1|2Small subunit ribosomal RNA40S ribosomal rRNA18SHomo sapiensEukaryaRF01960SARS-COV-2 nsp1 in complex with human 40S ribosomeElectron microscopy2.92020-10-14
248G6J|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2)Electron microscopy2.82023-04-19
257QVP|1|S3Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human collided disome (di-ribosome) stalled on XBP1 mRNAElectron microscopy32022-10-12
267MQA|1|L1Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of the human SSU processome, state post-A1Electron microscopy2.72021-09-22
276ZXE|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2Electron microscopy32020-12-02
286Y2L|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of human ribosome in POST stateElectron microscopy32020-04-15
298G61|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)Electron microscopy2.942023-04-19
306XA1|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Structure of a drug-like compound stalled human translation termination complexElectron microscopy2.82020-10-07
317WTZ|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2Electron microscopy32022-10-19
327WTU|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1)Electron microscopy32022-10-19
336ZMT|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complexElectron microscopy32020-08-19
346ZOK|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, focused on bodyElectron microscopy2.82020-07-29
356ZOL|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, focused on headElectron microscopy2.82020-07-22

Release history

Release3.2793.2803.2813.2823.2833.2843.2853.2863.2873.2883.2893.2903.2913.2923.2933.2943.2953.2963.2973.2983.2993.3003.3013.302
Date2023-04-192023-04-262023-05-032023-05-102023-05-172023-05-242023-05-312023-06-072023-06-142023-06-212023-06-282023-07-052023-07-122023-07-192023-07-262023-08-022023-08-092023-08-162023-08-232023-08-302023-09-062023-09-132023-09-202023-09-27

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_3.0_46995.30NR_3.0_46995.293.279(29) 6ZON|1|2, 6Z6L|1|S2, 6ZXH|1|2, 6ZMI|1|S2, 7R4X|1|2, 6Y2L|1|S2, 6ZXG|1|2, 6ZME|1|S2, 7QVP|1|S3, 6ZOL|1|2, 7XNY|1|S2, 6XA1|1|S2, 6ZXE|1|2, 6ZM7|1|S2, 7QVP|1|S2, 6ZOK|1|2, 7XNX|1|S2, 6QZP|1|S2, 6ZVH|1|2, 6ZLW|1|2, 7MQA|1|L1, 6ZOJ|1|2, 7WTZ|1|2, 6ZV6|1|2, 6Z6N|1|S2, 7K5I|1|2, 7WTU|1|2, 6ZMT|1|2, 6ZP4|1|2(6) 8G6J|1|S2, 8G5Y|1|S2, 8G60|1|S2, 8G61|1|S2, 8GLP|1|S2, 8G5Z|1|S2(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_3.0_46995.30NR_3.0_46995.313.303(35) 8G5Y|1|S2, 6ZON|1|2, 7XNY|1|S2, 6ZOL|1|2, 7XNX|1|S2, 6ZOK|1|2, 7WTZ|1|2, 6ZOJ|1|2, 7WTU|1|2, 6ZMT|1|2, 6ZMI|1|S2, 7R4X|1|2, 6ZME|1|S2, 7QVP|1|S3, 6ZM7|1|S2, 7QVP|1|S2, 6ZLW|1|2, 7MQA|1|L1, 6Z6N|1|S2, 7K5I|1|2, 6Z6L|1|S2, 6ZXH|1|2, 8GLP|1|S2, 6Y2L|1|S2, 6ZXG|1|2, 8G6J|1|S2, 6XA1|1|S2, 6ZXE|1|2, 8G61|1|S2, 6QZP|1|S2, 6ZVH|1|2, 8G60|1|S2, 6ZV6|1|2, 8G5Z|1|S2, 6ZP4|1|2(0) (1) 8T4S|1|2

Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5

#S - ordering by similarity (same as in the heat map).
#SPDBTitleMethodResolutionLength
16ZXE|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2ELECTRON MICROSCOPY31645
26ZMT|1|2SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complexELECTRON MICROSCOPY31569
36ZP4|1|2SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2ELECTRON MICROSCOPY2.91721
46ZOL|1|2SARS-CoV-2-Nsp1-40S complex, focused on headELECTRON MICROSCOPY2.8472
57K5I|1|2SARS-COV-2 nsp1 in complex with human 40S ribosomeELECTRON MICROSCOPY2.91665
66ZLW|1|2SARS-CoV-2 Nsp1 bound to the human 40S ribosomal subunitELECTRON MICROSCOPY2.61665
76ZME|1|S2SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complexELECTRON MICROSCOPY31740
86ZM7|1|S2SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complexELECTRON MICROSCOPY2.71740
96ZMI|1|S2SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complexELECTRON MICROSCOPY2.61740
106Z6L|1|S2Cryo-EM structure of human CCDC124 bound to 80S ribosomesELECTRON MICROSCOPY31740
116Z6N|1|S2Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1)ELECTRON MICROSCOPY2.91740
127XNY|1|S2High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cellsELECTRON MICROSCOPY2.51687
137XNX|1|S2High resolution cry-EM structure of the human 80S ribosome from SNORD127+/+ Kasumi-1 cellsELECTRON MICROSCOPY2.71686
146QZP|1|S2High-resolution cryo-EM structure of the human 80S ribosomeELECTRON MICROSCOPY2.91707
156ZVH|1|2EDF1-ribosome complexELECTRON MICROSCOPY2.91740
166XA1|1|S2Structure of a drug-like compound stalled human translation termination complexELECTRON MICROSCOPY2.81512
176Y2L|1|S2Structure of human ribosome in POST stateELECTRON MICROSCOPY31713
187QVP|1|S2Human collided disome (di-ribosome) stalled on XBP1 mRNAELECTRON MICROSCOPY31714
198G60|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (CR state)ELECTRON MICROSCOPY2.541569
208G5Y|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)ELECTRON MICROSCOPY2.291595
218GLP|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (Consensus LSU focused refined structure)ELECTRON MICROSCOPY1.671587
228G6J|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2)ELECTRON MICROSCOPY2.81616
238G5Z|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)ELECTRON MICROSCOPY2.641616
248G61|1|S2mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)ELECTRON MICROSCOPY2.941598
257QVP|1|S3Human collided disome (di-ribosome) stalled on XBP1 mRNAELECTRON MICROSCOPY31705
266ZXG|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1ELECTRON MICROSCOPY2.61577
276ZXH|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2ELECTRON MICROSCOPY2.71577
286ZV6|1|2Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)ELECTRON MICROSCOPY2.91681
297R4X|1|2Cryo-EM reconstruction of the human 40S ribosomal subunit - Full mapELECTRON MICROSCOPY2.151580
306ZON|1|2SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 1ELECTRON MICROSCOPY31721
316ZOJ|1|2SARS-CoV-2-Nsp1-40S complex, composite mapELECTRON MICROSCOPY2.81704
326ZOK|1|2SARS-CoV-2-Nsp1-40S complex, focused on bodyELECTRON MICROSCOPY2.81232
337WTZ|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2ELECTRON MICROSCOPY31624
347WTU|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1)ELECTRON MICROSCOPY31574
357MQA|1|L1Cryo-EM structure of the human SSU processome, state post-A1ELECTRON MICROSCOPY2.71570
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