RNA 3D Hub //

Equivalence class NR_3.5_46995.27 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
16ZMI|1|S2 (rep)Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complexElectron microscopy2.62020-08-19
26ZM7|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complexElectron microscopy2.72020-07-29
36ZLW|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human 40S ribosomal subunitElectron microscopy2.62020-07-29
46ZVH|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960EDF1-ribosome complexElectron microscopy2.92020-08-19
56Z6N|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1)Electron microscopy2.92020-07-29
66ZOJ|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, composite mapElectron microscopy2.82020-07-22
76ZP4|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
86ZXG|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
96QZP|1|S2Small subunit ribosomal RNA18S rRNA (1740-MER)Homo sapiensEukaryaRF01960High-resolution cryo-EM structure of the human 80S ribosomeElectron microscopy2.92019-04-24
106ZME|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complexElectron microscopy32020-08-12
116Z6L|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human CCDC124 bound to 80S ribosomesElectron microscopy32020-07-29
126ZV6|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
136ZON|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 1Electron microscopy32020-07-29
146ZXH|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
157QVP|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human collided disome (di-ribosome) stalled on XBP1 mRNAElectron microscopy32022-10-12
167K5I|1|2Small subunit ribosomal RNA40S ribosomal rRNA18SHomo sapiensEukaryaRF01960SARS-COV-2 nsp1 in complex with human 40S ribosomeElectron microscopy2.92020-10-14
177QVP|1|S3Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human collided disome (di-ribosome) stalled on XBP1 mRNAElectron microscopy32022-10-12
186ZMO|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to the human LYAR-80S-eEF1a ribosome complexElectron microscopy3.12020-08-19
196Z6M|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of human 80S ribosomes bound to EBP1, eEF2 and SERBP1Electron microscopy3.12020-07-29
207MQA|1|L1Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of the human SSU processome, state post-A1Electron microscopy2.72021-09-22
216ZXE|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2Electron microscopy32020-12-02
226Y2L|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of human ribosome in POST stateElectron microscopy32020-04-15
236ZUO|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Human RIO1(kd)-StHA late pre-40S particle, structural state A (pre 18S rRNA cleavage)Electron microscopy3.12021-05-12
246XA1|1|S2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Structure of a drug-like compound stalled human translation termination complexElectron microscopy2.82020-10-07
256OM0|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with AP and PE tRNAsElectron microscopy3.12019-06-19
266OLE|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AP and PE tRNAsElectron microscopy3.12019-06-19
277WTZ|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2Electron microscopy32022-10-19
286ZN5|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complex - state 2Electron microscopy3.22020-07-29
297WTU|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
307WTX|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B1Electron microscopy3.12022-10-19
316ZXD|1|2Small subunit ribosomal RNApre-18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State F1Electron microscopy3.22020-12-02
326Y0G|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of human ribosome in classical-PRE stateElectron microscopy3.22020-04-15
336ZMT|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complexElectron microscopy32020-08-19
347WTT|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (with CK1)Electron microscopy3.12022-10-19
357WTW|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A3Electron microscopy3.22022-10-19
367A09|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of a human ABCE1-bound 43S pre-initiation complex - State IIIElectron microscopy3.52020-10-14
376OLG|1|B1Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Human ribosome nascent chain complex stalled by a drug-like small molecule (CDH1_RNC with PP tRNA)Electron microscopy3.42019-06-19
387TQL|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960CryoEM structure of the human 40S small ribosomal subunit in complex with translation initiation factors eIF1A and eIF5B.Electron microscopy3.42022-04-27
397WU0|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B3Electron microscopy3.32022-10-19
406OLI|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of human ribosome nascent chain complex selectively stalled by a drug-like small molecule (USO1-RNC)Electron microscopy3.52019-06-19
416Y57|1|S2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Structure of human ribosome in hybrid-PRE stateElectron microscopy3.52020-04-15
426G5I|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo-EM structure of a late human pre-40S ribosomal subunit - State RElectron microscopy3.52018-06-06
437WTS|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State UTP14Electron microscopy3.22022-10-19
446ZOK|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, focused on bodyElectron microscopy2.82020-07-29
457WTV|1|2Small subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A2Electron microscopy3.52022-10-19
465AJ0|1|B1Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960Cryo electron microscopy of actively translating human polysomes (POST state).Electron microscopy3.52015-05-20
476YBW|1|ASmall subunit ribosomal RNA18S rRNAHomo sapiensEukaryaRF01960Structure of a human 48S translational initiation complex - 40S bodyElectron microscopy3.12020-09-16
486ZOL|1|2Small subunit ribosomal RNA18S ribosomal RNAHomo sapiensEukaryaRF01960SARS-CoV-2-Nsp1-40S complex, focused on headElectron microscopy2.82020-07-22

Release history

Release3.2533.2543.2553.2563.2573.2583.2593.2603.2613.2623.2633.2643.2653.2663.2673.2683.2693.270
Date2022-10-192022-10-262022-11-022022-11-092022-11-162022-11-232022-11-302022-12-072022-12-142022-12-212022-12-282023-01-042023-01-112023-01-182023-01-252023-02-012023-02-082023-02-15

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_3.5_46995.27NR_3.5_46995.263.253(40) 6OM0|1|S2, 7QVP|1|S2, 6ZME|1|S2, 6ZVH|1|2, 6Y2L|1|S2, 6ZN5|1|2, 6G5I|1|2, 6ZXH|1|2, 6Z6M|1|S2, 6ZON|1|2, 6ZM7|1|S2, 6Y0G|1|S2, 6ZMT|1|2, 5AJ0|1|B1, 6Z6L|1|S2, 6OLI|1|S2, 6ZV6|1|2, 6ZXG|1|2, 6ZOL|1|2, 7MQA|1|L1, 6ZLW|1|2, 6XA1|1|S2, 6ZMO|1|S2, 6YBW|1|A, 6OLG|1|B1, 6ZUO|1|2, 7TQL|1|2, 6ZXE|1|2, 6ZOK|1|2, 7K5I|1|2, 6QZP|1|S2, 6ZMI|1|S2, 6Y57|1|S2, 6OLE|1|S2, 6Z6N|1|S2, 6ZP4|1|2, 7QVP|1|S3, 6ZXD|1|2, 6ZOJ|1|2, 7A09|1|2(8) 7WTW|1|2, 7WTZ|1|2, 7WTV|1|2, 7WTX|1|2, 7WTU|1|2, 7WTT|1|2, 7WTS|1|2, 7WU0|1|2(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_3.5_46995.27NR_3.5_46995.283.271(48) 6Y57|1|S2, 6ZP4|1|2, 7WTU|1|2, 6Y2L|1|S2, 6ZON|1|2, 7WTT|1|2, 6Y0G|1|S2, 6ZOL|1|2, 7WTS|1|2, 6XA1|1|S2, 6ZOK|1|2, 7TQL|1|2, 6QZP|1|S2, 6ZOJ|1|2, 7QVP|1|S3, 6OM0|1|S2, 6ZN5|1|2, 7QVP|1|S2, 6OLI|1|S2, 6ZMT|1|2, 7MQA|1|L1, 6OLG|1|B1, 6ZMO|1|S2, 7K5I|1|2, 6OLE|1|S2, 6ZMI|1|S2, 7A09|1|2, 6G5I|1|2, 6ZME|1|S2, 6ZXH|1|2, 5AJ0|1|B1, 6ZM7|1|S2, 6ZXG|1|2, 6ZLW|1|2, 6ZXE|1|2, 7WU0|1|2, 6Z6N|1|S2, 6ZXD|1|2, 7WTZ|1|2, 6Z6M|1|S2, 6ZVH|1|2, 7WTX|1|2, 6Z6L|1|S2, 6ZV6|1|2, 7WTW|1|2, 6YBW|1|A, 6ZUO|1|2, 7WTV|1|2(0) (1) 7R4X|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
16OM0|1|S2Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with AP and PE tRNAsELECTRON MICROSCOPY3.11680
26ZLW|1|2SARS-CoV-2 Nsp1 bound to the human 40S ribosomal subunitELECTRON MICROSCOPY2.61665
37K5I|1|2SARS-COV-2 nsp1 in complex with human 40S ribosomeELECTRON MICROSCOPY2.91665
46ZOL|1|2SARS-CoV-2-Nsp1-40S complex, focused on headELECTRON MICROSCOPY2.8472
56ZP4|1|2SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 2ELECTRON MICROSCOPY2.91721
67A09|1|2Structure of a human ABCE1-bound 43S pre-initiation complex - State IIIELECTRON MICROSCOPY3.51721
76ZMT|1|2SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complexELECTRON MICROSCOPY31569
86ZXD|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State F1ELECTRON MICROSCOPY3.21645
96ZUO|1|2Human RIO1(kd)-StHA late pre-40S particle, structural state A (pre 18S rRNA cleavage)ELECTRON MICROSCOPY3.11665
106G5I|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State RELECTRON MICROSCOPY3.51657
116ZXE|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2ELECTRON MICROSCOPY31645
126ZXG|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1ELECTRON MICROSCOPY2.61577
136ZXH|1|2Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2ELECTRON MICROSCOPY2.71577
146ZV6|1|2Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)ELECTRON MICROSCOPY2.91681
155AJ0|1|B1Cryo electron microscopy of actively translating human polysomes (POST state).ELECTRON MICROSCOPY3.51708
166OLG|1|B1Human ribosome nascent chain complex stalled by a drug-like small molecule (CDH1_RNC with PP tRNA)ELECTRON MICROSCOPY3.41708
177QVP|1|S3Human collided disome (di-ribosome) stalled on XBP1 mRNAELECTRON MICROSCOPY31705
186Y57|1|S2Structure of human ribosome in hybrid-PRE stateELECTRON MICROSCOPY3.51658
196Y0G|1|S2Structure of human ribosome in classical-PRE stateELECTRON MICROSCOPY3.21697
206OLE|1|S2Human ribosome nascent chain complex (CDH1-RNC) stalled by a drug-like molecule with AP and PE tRNAsELECTRON MICROSCOPY3.11680
216OLI|1|S2Structure of human ribosome nascent chain complex selectively stalled by a drug-like small molecule (USO1-RNC)ELECTRON MICROSCOPY3.51680
226Y2L|1|S2Structure of human ribosome in POST stateELECTRON MICROSCOPY31713
237QVP|1|S2Human collided disome (di-ribosome) stalled on XBP1 mRNAELECTRON MICROSCOPY31714
246XA1|1|S2Structure of a drug-like compound stalled human translation termination complexELECTRON MICROSCOPY2.81512
256ZVH|1|2EDF1-ribosome complexELECTRON MICROSCOPY2.91740
266QZP|1|S2High-resolution cryo-EM structure of the human 80S ribosomeELECTRON MICROSCOPY2.91707
276Z6N|1|S2Cryo-EM structure of human EBP1-80S ribosomes (focus on EBP1)ELECTRON MICROSCOPY2.91740
286Z6L|1|S2Cryo-EM structure of human CCDC124 bound to 80S ribosomesELECTRON MICROSCOPY31740
296ZMO|1|S2SARS-CoV-2 Nsp1 bound to the human LYAR-80S-eEF1a ribosome complexELECTRON MICROSCOPY3.11740
306ZMI|1|S2SARS-CoV-2 Nsp1 bound to the human LYAR-80S ribosome complexELECTRON MICROSCOPY2.61740
316ZM7|1|S2SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-EBP1 ribosome complexELECTRON MICROSCOPY2.71740
326ZME|1|S2SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complexELECTRON MICROSCOPY31740
336ZN5|1|2SARS-CoV-2 Nsp1 bound to a pre-40S-like ribosome complex - state 2ELECTRON MICROSCOPY3.21671
347TQL|1|2CryoEM structure of the human 40S small ribosomal subunit in complex with translation initiation factors eIF1A and eIF5B.ELECTRON MICROSCOPY3.41656
356ZOK|1|2SARS-CoV-2-Nsp1-40S complex, focused on bodyELECTRON MICROSCOPY2.81232
366ZOJ|1|2SARS-CoV-2-Nsp1-40S complex, composite mapELECTRON MICROSCOPY2.81704
376ZON|1|2SARS-CoV-2 Nsp1 bound to a human 43S preinitiation ribosome complex - state 1ELECTRON MICROSCOPY31721
386Z6M|1|S2Cryo-EM structure of human 80S ribosomes bound to EBP1, eEF2 and SERBP1ELECTRON MICROSCOPY3.11740
396YBW|1|AStructure of a human 48S translational initiation complex - 40S bodyELECTRON MICROSCOPY3.11196
407WU0|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B3ELECTRON MICROSCOPY3.31624
417WTZ|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B2ELECTRON MICROSCOPY31624
427WTX|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-B1ELECTRON MICROSCOPY3.11605
437WTW|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A3ELECTRON MICROSCOPY3.21585
447WTU|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (without CK1)ELECTRON MICROSCOPY31574
457WTT|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (with CK1)ELECTRON MICROSCOPY3.11574
467WTV|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A2ELECTRON MICROSCOPY3.51573
477WTS|1|2Cryo-EM structure of a human pre-40S ribosomal subunit - State UTP14ELECTRON MICROSCOPY3.21481
487MQA|1|L1Cryo-EM structure of the human SSU processome, state post-A1ELECTRON MICROSCOPY2.71570
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