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Equivalence class NR_all_69141.2 Obsolete

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. ÅDate
17YGA|1|N (rep)Group I catalytic intronRNA (5'-R(*UP*CP*GP*(SSU)P*AP*AP*CP*C)-3'), RNA (5'-R(*CP*CP*CP*UP*CP*U)-3'), RNA (393-MER)TetrahymenaEukaryaRF00028Cryo-EM structure of Tetrahymena ribozyme conformation 2 undergoing the second-step self-splicingElectron microscopy2.352023-03-29
27XD6|1|NGroup I catalytic intronThe Tet-S2 state with a pseudoknotted 4-way junction molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon (5'-exon), The Tet-S2 state with a pseudoknotted 4-way junction molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon (intron and 3'-exon)Tetrahymena thermophilaEukaryaRF00028The Tet-S2 state with a pseudoknotted 4-way junction of wild-type Tetrahymena group I intron with 30nt 3'/5'-exonElectron microscopy2.842023-04-05
37YGB|1|NGroup I catalytic intronRNA (5'-R(*UP*CP*G)-3'), RNA (5'-R(*CP*CP*CP*UP*CP*UP*UP*AP*AP*CP*C)-3'), RNA (393-MER)TetrahymenaEukaryaRF00028Cryo-EM structure of Tetrahymena ribozyme conformation 3 undergoing the second-step self-splicingElectron microscopy2.622023-03-29
48I7N|1|NThe Tet-S1 state molecule of co-transcriptional folded G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideTetrahymena thermophilaThe Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideElectron microscopy2.982023-03-29
57YGC|1|NGroup I catalytic intronRNA (5'-R(*UP*CP*G)-3'), RNA (5'-R(*CP*CP*CP*UP*CP*UP*UP*AP*AP*CP*C)-3'), RNA (393-MER)TetrahymenaEukaryaRF00028Cryo-EM structure of Tetrahymena ribozyme conformation 4 undergoing the second-step self-splicingElectron microscopy2.652023-03-29
67XD5|1|NGroup I catalytic intronThe Tet-S2 state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon (5'-exon), The Tet-S2 state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon (intron and 3'-exon)Tetrahymena thermophilaEukaryaRF00028The Tet-S2 state of wild-type Tetrahymena group I intron with 30nt 3'/5'-exonElectron microscopy2.842023-04-05
77YG9|1|NGroup I catalytic intronRNA (5'-R(*UP*CP*GP*(SSU)P*AP*AP*C)-3'), RNA (5'-R(*CP*CP*CP*UP*CP*U)-3'), RNA (391-MER)TetrahymenaEukaryaRF00028Cryo-EM structure of Tetrahymena ribozyme conformation 1 undergoing the second-step self-splicingElectron microscopy2.682023-03-29
87XD7|1|NGroup I catalytic intronThe pre-Tet-C state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exonTetrahymena thermophilaEukaryaRF00028The pre-Tet-C state of wild-type Tetrahymena group I intron with 30nt 3'/5'-exonElectron microscopy3.022023-03-29
97EZ2|1|NGroup I catalytic intronHolo L-16 ScaI Tetrahymena ribozyme S1, Holo L-16 ScaI Tetrahymena ribozyme S2, Holo L-16 ScaI Tetrahymena ribozymeTetrahymena thermophilaEukaryaRF00028Holo L-16 ScaI Tetrahymena ribozymeElectron microscopy3.052021-08-25
107XSN|1|NGroup I catalytic intronRNA (387-MER)Tetrahymena thermophilaEukaryaRF00028Native Tetrahymena ribozyme conformationElectron microscopy3.012022-08-03
117YG8|1|NGroup I catalytic intronRNA (5'-R(*UP*CP*G)-3'), RNA (5'-R(*CP*CP*CP*UP*C)-3'), RNA (387-MER)TetrahymenaEukaryaRF00028Cryo-EM structure of Tetrahymena ribozyme conformation 5 undergoing the second-step self-splicingElectron microscopy2.972023-03-29
127EZ0|1|NGroup I catalytic intronApo L-21 ScaI Tetrahymena ribozymeTetrahymena thermophilaEukaryaRF00028Apo L-21 ScaI Tetrahymena ribozymeElectron microscopy3.142021-08-25
137R6L|1|AGroup I catalytic intronGroup I intron, 5 prime fragment, Group I intron, 3 prime fragment plus 3 prime exonTetrahymena thermophilaEukaryaRF000285 prime exon-free pre-2S intermediate of the Tetrahymena group I intron, symmetry-expanded monomer from a synthetic dimeric constructElectron microscopy2.852022-05-04
148HD7|1|NThe intermediate pre-Tet-S1 state molecule of co-transcriptional folded G264A mutant Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideTetrahymena thermophilaThe intermediate pre-Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideElectron microscopy3.522023-03-29
158HD6|1|NThe relaxed pre-Tet-S1 state molecule of co-transcriptional folded G264A mutant Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideTetrahymena thermophilaThe relaxed pre-Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideElectron microscopy3.732023-03-29
167YGD|1|NGroup I catalytic intronRNA (5'-R(*UP*CP*G)-3'), RNA (5'-R(*CP*C)-3'), RNA (384-MER)TetrahymenaEukaryaRF00028Cryo-EM structure of Tetrahymena ribozyme conformation 6 undergoing the second-step self-splicingElectron microscopy3.412023-03-29
177XD4|1|NGroup I catalytic intronCo-transcriptional folded wild-type Tetrahymena group I intron with 6nt 3'/5'-exonTetrahymena thermophilaEukaryaRF00028The intermediate pre-Tet-S1 state of wild-type Tetrahymena group I intron with 6nt 3'/5'-exonElectron microscopy3.892023-03-29
187XD3|1|NGroup I catalytic intronThe relaxed pre-Tet-S1 state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 6nt 3'/5'-exonTetrahymena thermophilaEukaryaRF00028The relaxed pre-Tet-S1 state of wild-type Tetrahymena group I intron with 6nt 3'/5'-exonElectron microscopy4.052023-03-29
197XSK|1|NGroup I catalytic intronRNA (388-MER)Tetrahymena thermophilaEukaryaRF00028Misfolded Tetrahymena ribozyme conformation 1Electron microscopy3.532022-08-03
207R6M|1|AGroup I catalytic intronGroup I intron, Ligated exon mimic of the Group I intronTetrahymena thermophilaEukaryaRF00028Post-2S intermediate of the Tetrahymena group I intron, symmetry-expanded monomer from a synthetic dimeric constructElectron microscopy3.682022-05-04
217UVT|1|AGroup I catalytic intronRNA (386-MER)Tetrahymena thermophilaEukaryaRF00028Kinetically trapped misfolded state of the Tetrahymena ribozymeElectron microscopy3.92022-08-31
227XSL|1|NGroup I catalytic intronRNA (388-MER)Tetrahymena thermophilaEukaryaRF00028Misfolded Tetrahymena ribozyme conformation 2Electron microscopy3.842022-08-03
237XSM|1|NGroup I catalytic intronRNA (388-MER)Tetrahymena thermophilaEukaryaRF00028Misfolded Tetrahymena ribozyme conformation 3Electron microscopy4.012022-08-03
247R6N|1|AGroup I catalytic intronGroup I intronTetrahymena thermophilaEukaryaRF00028Exon-free state of the Tetrahymena group I intron, symmetry-expanded monomer from a synthetic trimeric constructElectron microscopy4.12022-05-04
256WLS|11|AGroup I catalytic intronRNA (388-MER)Tetrahymena thermophilaEukaryaRF00028Tetrahymena ribozyme models, 6.8 Angstrom resolutionElectron microscopy6.82020-07-08

Release history

Release3.2773.2783.2793.2803.2813.2823.2833.2843.2853.2863.2873.2883.289
Date2023-04-052023-04-122023-04-192023-04-262023-05-032023-05-102023-05-172023-05-242023-05-312023-06-072023-06-142023-06-212023-06-28

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent
NR_all_69141.2NR_all_69141.13.277(23) 7YG8|1|N, 7XSN|1|N, 7XSM|1|N, 7XSL|1|N, 7XSK|1|N, 7XD7|1|N, 7XD4|1|N, 7XD3|1|N, 7UVT|1|A, 8I7N|1|N, 7R6N|1|A, 8HD7|1|N, 7R6M|1|A, 8HD6|1|N, 7R6L|1|A, 7YGD|1|N, 7EZ2|1|N, 7YGC|1|N, 7EZ0|1|N, 7YGB|1|N, 6WLS|11|A, 7YGA|1|N, 7YG9|1|N(2) 7XD5|1|N, 7XD6|1|N(0)

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded to child
NR_all_69141.2NR_all_69141.33.290(25) 7XSK|1|N, 7YG8|1|N, 7YGC|1|N, 6WLS|11|A, 8I7N|1|N, 7R6M|1|A, 7XD4|1|N, 7XD7|1|N, 7XSN|1|N, 7YGB|1|N, 8HD7|1|N, 7R6L|1|A, 7XD3|1|N, 7XD6|1|N, 7XSM|1|N, 7YGA|1|N, 8HD6|1|N, 7EZ2|1|N, 7UVT|1|A, 7XSL|1|N, 7YG9|1|N, 7YGD|1|N, 7EZ0|1|N, 7R6N|1|A, 7XD5|1|N(0) (4) 7YCG|1|N, 7YC8|1|N, 7YCI|1|N, 7YCH|1|N

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
17UVT|1|AKinetically trapped misfolded state of the Tetrahymena ribozymeELECTRON MICROSCOPY3.9386
27XSK|1|NMisfolded Tetrahymena ribozyme conformation 1ELECTRON MICROSCOPY3.53388
37XSM|1|NMisfolded Tetrahymena ribozyme conformation 3ELECTRON MICROSCOPY4.01388
47XSL|1|NMisfolded Tetrahymena ribozyme conformation 2ELECTRON MICROSCOPY3.84388
56WLS|11|ATetrahymena ribozyme models, 6.8 Angstrom resolutionELECTRON MICROSCOPY6.8388
68HD6|1|NThe relaxed pre-Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideELECTRON MICROSCOPY3.73419
77XD3|1|NThe relaxed pre-Tet-S1 state of wild-type Tetrahymena group I intron with 6nt 3'/5'-exonELECTRON MICROSCOPY4.05423
87YG8|1|NCryo-EM structure of Tetrahymena ribozyme conformation 5 undergoing the second-step self-splicingELECTRON MICROSCOPY2.97387
97YGC|1|NCryo-EM structure of Tetrahymena ribozyme conformation 4 undergoing the second-step self-splicingELECTRON MICROSCOPY2.65393
107YGD|1|NCryo-EM structure of Tetrahymena ribozyme conformation 6 undergoing the second-step self-splicingELECTRON MICROSCOPY3.41384
117XSN|1|NNative Tetrahymena ribozyme conformationELECTRON MICROSCOPY3.01387
127EZ0|1|NApo L-21 ScaI Tetrahymena ribozymeELECTRON MICROSCOPY3.14387
137XD7|1|NThe pre-Tet-C state of wild-type Tetrahymena group I intron with 30nt 3'/5'-exonELECTRON MICROSCOPY3.02405
147R6N|1|AExon-free state of the Tetrahymena group I intron, symmetry-expanded monomer from a synthetic trimeric constructELECTRON MICROSCOPY4.1354
157XD4|1|NThe intermediate pre-Tet-S1 state of wild-type Tetrahymena group I intron with 6nt 3'/5'-exonELECTRON MICROSCOPY3.89423
168HD7|1|NThe intermediate pre-Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideELECTRON MICROSCOPY3.52419
177XD5|1|NThe Tet-S2 state of wild-type Tetrahymena group I intron with 30nt 3'/5'-exonELECTRON MICROSCOPY2.84400
188I7N|1|NThe Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleosideELECTRON MICROSCOPY2.98418
197EZ2|1|NHolo L-16 ScaI Tetrahymena ribozymeELECTRON MICROSCOPY3.05392
207XD6|1|NThe Tet-S2 state with a pseudoknotted 4-way junction of wild-type Tetrahymena group I intron with 30nt 3'/5'-exonELECTRON MICROSCOPY2.84434
217YG9|1|NCryo-EM structure of Tetrahymena ribozyme conformation 1 undergoing the second-step self-splicingELECTRON MICROSCOPY2.68391
227YGA|1|NCryo-EM structure of Tetrahymena ribozyme conformation 2 undergoing the second-step self-splicingELECTRON MICROSCOPY2.35393
237YGB|1|NCryo-EM structure of Tetrahymena ribozyme conformation 3 undergoing the second-step self-splicingELECTRON MICROSCOPY2.62393
247R6M|1|APost-2S intermediate of the Tetrahymena group I intron, symmetry-expanded monomer from a synthetic dimeric constructELECTRON MICROSCOPY3.68356
257R6L|1|A5 prime exon-free pre-2S intermediate of the Tetrahymena group I intron, symmetry-expanded monomer from a synthetic dimeric constructELECTRON MICROSCOPY2.85343
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